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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

SEMA4D Gene

protein-coding GIFtS: 65
GCID: GC09M091975

sema domain, immunoglobulin domain (Ig), transmembrane domain...

(Previous name: chromosome 9 open reading frame 164 )
(Previous symbols: SEMAJ, C9orf164)

Explore 14 diseases affiliated with
SEMA4D via

MalaCards

our new
Human Malady Compendium

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, and/or ¹⁰fRNAdb)
About This Section

Aliases
Sema Domain, Immunoglobulin Domain (Ig), Transmembrane Domain (TM) And Short Cytoplasmic Domain, (Semaphorin) 4D¹ ²		GR3² ³
C9orf164¹ ² ³		FLJ39737¹
CD100¹ ² ³		Chromosome 9 Open Reading Frame 164¹
SEMAJ¹ ² ³		M-Sema-G¹
Coll-4¹		Sema Domain, Immunoglobulin Domain (Ig), Transmembrane Domain (TM) And Short Cytoplasmic Domain, 4D²
A8² ³		Semaphorin-4D¹
BB18² ³		CD100 Antigen³

External Ids:	HGNC: 10732¹	Entrez Gene: 10507²	Ensembl: ENSG00000187764⁷	OMIM: 601866⁵	UniProtKB: Q92854³

Export aliases for SEMA4D gene to outside databases

Previous GC identifers: GC09U990094 GC09M083868 GC09M085576 GC09M9O0142 GC09M089221 GC09M091181 GC09M061809

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: SEM4D_HUMAN, Q92854

Function: Cell surface receptor for PLXN1B and PLXNB2 that plays an important role in cell-cell signaling. Promotes

reorganization of the actin cytoskeleton and plays a role in axonal growth cone guidance in the developing central

nervous system. Regulates dendrite and axon branching and morphogenesis. Promotes the migration of cerebellar granule

cells and of endothelial cells. Plays a role in the immune system; induces B-cells to aggregate and improves their

viability (in vitro). Promotes signaling via SRC and PTK2B/PYK2, which then mediates activation of

phosphatidylinositol 3-kinase and of the AKT1 signaling cascade. Interaction with PLXNB1 mediates activation of RHOA

Gene Wiki entry for SEMA4D

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section

RefSeq DNA sequence:

NC_000009.11 NC_018920.1 NT_008470.19

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the SEMA4D gene promoter:
Elk-1 AP-1 p53 Pbx1a MyoD Evi-1 FOXL1 CP2 POU2F1 POU2F1a
Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): SEMA4D promoter sequence

Search SABiosciences Chromatin IP Primers for SEMA4D

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SEMA4D

Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 9q22.2 Ensembl cytogenetic band: 9q22.2 HGNC cytogenetic band: 9q22-q31

SEMA4D Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SEMA4D gene location

GeneLoc information about chromosome 9 GeneLoc Exon Structure

GeneLoc location for GC09M091975: view genomic region (about GC identifiers)

Start:	91,975,702 bp from pter	End:	92,113,045 bp from pter
Size:	137,344 bases	Orientation:	minus strand

(According to ¹UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to ²PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: SEM4D_HUMAN, Q92854 (See protein sequence)

Recommended Name: Semaphorin-4D precursor

Size: 862 amino acids; 96150 Da

Subunit: Homodimer. Interacts with PLXNB2 (By similarity). Binds PLXNB1

Subcellular location: Cell membrane; Single-pass type I membrane protein

Sequence caution: Sequence=AAI37516.1; Type=Miscellaneous discrepancy; Note=Cloning artifact; Sequence=AAI37519.1;

Type=Miscellaneous discrepancy; Note=Cloning artifact; Sequence=BAC04938.1; Type=Miscellaneous discrepancy;

Note=Cloning artifact; Sequence=CAI95794.1; Type=Erroneous gene model prediction;

2 PDB 3D structures from and Proteopedia for SEMA4D:

1OLZ (3D)

3OL2 (3D)

Secondary accessions: B2RPM6 Q7Z5S4 Q8N8B0

Alternative splicing: 2 isoforms: Q92854-1 Q92854-2

Explore the universe of human proteins at neXtProt for SEMA4D: NX_Q92854

Post-translational modifications:

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_Q92854

SEMA4D Protein expression data from MOPED and PaxDb: About this image

REFSEQ proteins (2 alternative transcripts):

NP_001135759.1 NP_006369.3

ENSEMBL proteins:

ENSP00000344923 ENSP00000399948 ENSP00000411981 ENSP00000395222 ENSP00000446394

ENSP00000416523 ENSP00000405102 ENSP00000388768 ENSP00000390754 ENSP00000413352

ENSP00000438389 ENSP00000416747 ENSP00000405652 ENSP00000391733 ENSP00000343418

ENSP00000348822

Reactome Protein details: Q92854
Human Recombinant Protein Products:

	Browse Purified and Recombinant Proteins at EMD Millipore
	Browse R&D Systems for human recombinant proteins
	Browse recombinant and purified proteins available from Enzo Life Sciences
	OriGene Purified Protein: SEMA4D OriGene Protein Over-expression Lysate: SEMA4D OriGene Custom Protein Services for SEMA4D
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	Novus Biologicals SEMA4D Protein Novus Biologicals SEMA4D Lysate
	Browse Sino Biological Recombinant Proteins
	Browse ProSpec Recombinant Proteins
	Uscn Proteins for SEMA4D

Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005615	extracellular space	ISS	--
GO:0005886	plasma membrane	TAS	--
GO:0005887	integral to plasma membrane	IDA	8876214

SEMA4D for ontologies About GeneDecksing

SEMA4D Antibody Products:

	EMD Millipore Mono- and Polyclonal Antibodies for the study of SEMA4D
	R&D Systems Antibodies for SEMA4D (Semaphorin 4D/CD100)
	OriGene Antibodies: SEMA4D OriGene Custom Antibody Services for SEMA4D
	GenScript Custom Superior Antibodies Services for SEMA4D
	Novus Biologicals SEMA4D Antibodies
	Abcam antibodies for SEMA4D
	Uscn Antibodies for SEMA4D
	ThermoFisher Antibodies for SEMA4D

Assay Products for SEMA4D:

	Browse Kits and Assays available from EMD Millipore
	OriGene Custom Immunoassay Development Browse OriGene Fluorogenic Cell Assay Kits
	Browse R&D Systems for biochemical assays
	GenScript Custom Assay Services for SEMA4D
	Browse Enzo Life Sciences for kits & assays
	Uscn ELISAs and CLIAs for SEMA4D

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

SEMA4D for domains About GeneDecksing

5/10 InterPro domains/families (see all 10):

IPR007110 Ig-like_dom

IPR003659 Plexin-like

IPR003599 Ig_sub

IPR002165 Plexin_repeat

IPR016201 Plexin-like_fold

Graphical View of Domain Structure for InterPro Entry Q92854

ProtoNet protein and cluster: Q92854

2 Blocks protein families:

IPB001627 Semaphorin/CD100 antigen

IPB003599 Immunoglobulin subtype

UniProtKB/Swiss-Prot: SEM4D_HUMAN, Q92854

Similarity: Belongs to the semaphorin family

Similarity: Contains 1 Ig-like C2-type (immunoglobulin-like) domain

Similarity: Contains 1 PSI domain

Similarity: Contains 1 Sema domain

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
About This Section

Function Summary:

UniProtKB/Swiss-Prot: SEM4D_HUMAN, Q92854

Function: Cell surface receptor for PLXN1B and PLXNB2 that plays an important role in cell-cell signaling. Promotes

reorganization of the actin cytoskeleton and plays a role in axonal growth cone guidance in the developing central

nervous system. Regulates dendrite and axon branching and morphogenesis. Promotes the migration of cerebellar granule

cells and of endothelial cells. Plays a role in the immune system; induces B-cells to aggregate and improves their

viability (in vitro). Promotes signaling via SRC and PTK2B/PYK2, which then mediates activation of

phosphatidylinositol 3-kinase and of the AKT1 signaling cascade. Interaction with PLXNB1 mediates activation of RHOA

Genatlas biochemistry entry for SEMA4D:

semaphorin 4D,mostly expressed in lymphocytes and the nervous system,inducing B cell to aggregate and improving their

viability in vitro,repellent of the nerve growth cone guidance,ligand for plexin B1 (PLXN4)

miRNA Products:		miRTarBase miRNAs that target SEMA4D: hsa-mir-192 (MIRT004149)

		OriGene 3'-UTR Clone (see all 2): SEMA4D Browse MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SEMA4D
		8/28 QIAGEN miScript miRNA Assays for microRNAs that regulate SEMA4D (see all 28):
		hsa-miR-125a-5p hsa-miR-875-3p hsa-miR-137 hsa-miR-188-5p hsa-miR-4251 hsa-miR-340 hsa-miR-378b hsa-miR-877*

		SwitchGear 3'UTR luciferase reporter plasmid: SEMA4D 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SEMA4D (see all 4) OriGene shRNA RFP: SEMA4D OriGene siRNA: SEMA4D
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SEMA4D

Gene Editing
Products:

DNA2.0 Custom Protein Engineering Service for SEMA4D

Clone Products:		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
		OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SEMA4D (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SEMA4D (see all 3) OriGene custom cloning services � gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 2): SEMA4D (NM_001142287)
		Browse Sino Biological Human cDNA Clones
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for SEMA4D
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Cell Line Products:		GenScript Custom overexpressing Cell Line Services for SEMA4D
		Search LifeMap BioReagents cell lines for SEMA4D

In Situ Assay
Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SEMA4D

Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0004872	receptor activity	IDA	15613544
GO:0004888	transmembrane signaling receptor activity	IMP	--
GO:0005102	receptor binding	IDA	11254688
GO:0005515	protein binding	IPI	--
GO:0030215	semaphorin receptor binding	ISS	--

SEMA4D for ontologies About GeneDecksing

1 GenomeRNAi human phenotype for SEMA4D:

Increased G1 DNA content

Animal Models:
Mouse knock-out Sema4d^tm1Kik for SEMA4D
7 MGI mutant phenotypes (inferred from 1 allele) (MGI details for Sema4d):

behavior/neurological	cardiovascular system	cellular	hematopoietic system	immune system
nervous system	renal/urinary system

SEMA4D for phenotypes About GeneDecksing

(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to ¹UniProtKB, ²MINT, ³I2D, and/or ⁴STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
About This Section

Unified GeneCards pathways - 5/7 super-pathways (see all 7) About this table

See pathways by source

Super-pathway

contained gene-specific pathways

Sema4D in semaphorin signaling

	Sema4D in semaphorin signaling	1.00			Semaphorin interactions	0.44
	Sema4D induced cell migration and growth-cone collapse	0.83

Axon guidance

Axon guidance

1.00

Developmental Biology

0.69

Neurophysiological process Receptor-mediated axon growth repulsion

Neurophysiological process Receptor-mediated axon growth repulsion

1.00

Neurophysiological process_Receptor-mediated axon growth repulsion

0.94

Sema4D mediated inhibition of cell attachment and migration

Sema4D mediated inhibition of cell attachment and migration

1.00

Semaphorin Signaling

Semaphorin Signaling

1.00

Pathway sources
See GeneCards unified pathways
Show all pathways

1 EMD Millipore Pathway for SEMA4D

Neurophysiological process Receptor-mediated axon growth repulsion

2 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for SEMA4D

	Guidance Cues and Growth Cone Motility
	Semaphorin Signaling

1 GeneGo (Thomson Reuters) Pathway for SEMA4D

Neurophysiological process Receptor-mediated axon growth repulsion

5/6 Reactome Pathways for SEMA4D (see all 6)

	Developmental Biology
	Sema4D induced cell migration and growth-cone collapse
	Semaphorin interactions
	Sema4D in semaphorin signaling
	Sema4D mediated inhibition of cell attachment and migration

1 Kegg Pathway (Kegg details for SEMA4D):

Axon guidance

SEMA4D for pathways About GeneDecksing

Interactions:

SABiosciences Gene Network Central^TM Interacting Genes and Proteins Network for SEMA4D

STRING Interaction Network Preview (showing 5 interactants - click image to see 18)

5/18 Interacting proteins for SEMA4D (Q92854^{2, 3} ENSP00000343418⁴) via UniProtKB, MINT, STRING, and/or I2D (see all 18)

Interactant		Interaction Details
GeneCard	External ID(s)	Interaction Details
PTPRC	P08575²^,³, ENSP00000356346⁴	MINT-8312043 I2D: score=3 STRING: ENSP00000356346
PLXNB1	O43157³, ENSP00000296440⁴	I2D: score=3 STRING: ENSP00000296440
CD72	P21854³, ENSP00000259633⁴	I2D: score=3 STRING: ENSP00000259633
ARHGAP35	ENSP00000385720⁴	STRING: ENSP00000385720
ARHGEF11	ENSP00000357177⁴	STRING: ENSP00000357177

About this table

Gene Ontology (GO): 5/23 biological process terms (GO ID links to tree view) (see all 23): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	IMP	--
GO:0001934	positive regulation of protein phosphorylation	IDA	16055703
GO:0006955	immune response	TAS	8876214
GO:0007155	cell adhesion	TAS	8876214
GO:0007411	axon guidance	TAS	--

SEMA4D for ontologies About GeneDecksing

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section

SEMA4D for compounds About GeneDecksing

Browse Small Molecules at EMD Millipore

Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for SEMA4D
3 Novoseek chemical compound relationships for SEMA4D gene About this table

Compound	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
phosphatidylinositol	34.4	2	12565860 (1)
tyrosine	34.1	4	19805522 (2), 15210733 (1), 12906260 (1)
serine	0	3	11254687 (2), 12906260 (1)

Search CenterWatch for drugs/clinical trials and news about SEMA4D / SEM4D

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for SEMA4D gene (3 alternative transcripts):

NM_182635.1 NM_001142287.1 NM_006378.3

Unigene Cluster for SEMA4D:

Sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D

Hs.494406 [show with all ESTs]

Unigene Representative Sequence: AB210030

18/25 Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 25):

ENST00000339861 ENST00000492386(uc004aql.2) ENST00000420101 ENST00000475255

ENST00000469653(uc004aqm.2) ENST00000455551 ENST00000429836 ENST00000537934

ENST00000450295 ENST00000438547(uc004aqo.1) ENST00000422704 ENST00000486935

ENST00000540183 ENST00000544513 ENST00000474258 ENST00000420681 ENST00000433650

ENST00000540475

miRNA Products:		OriGene 3'-UTR Clone (see all 2): SEMA4D Browse OriGene MicroRNA Expression Plasmids
		QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SEMA4D
		8/28 QIAGEN miScript miRNA Assays for microRNAs that regulate SEMA4D (see all 28):
		hsa-miR-125a-5p hsa-miR-875-3p hsa-miR-137 hsa-miR-188-5p hsa-miR-4251 hsa-miR-340 hsa-miR-378b hsa-miR-877*

		SwitchGear 3'UTR luciferase reporter plasmid: SEMA4D 3' UTR sequence

Inhib. RNA Products:		Browse for Gene Knock-down Tools from EMD Millipore
		OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SEMA4D (see all 4) OriGene shRNA RFP: SEMA4D OriGene siRNA: SEMA4D
		QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SEMA4D

Clone Products:		OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SEMA4D (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SEMA4D (see all 3) OriGene custom cloning services � gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
		GenScript: all cDNA clones in your preferred vector (see all 2): SEMA4D (NM_001142287)
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Primer Products:		OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SEMA4D Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay in human, mouse, rat SEMA4D
		QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SEMA4D
		QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SEMA4D

Additional cDNA sequence:

AB210030.1 AJ420442.1 AK090804.1 AK091601.1 AK128342.1 AK316107.1 BC054500.1 BC137515.1

BC137518.1 BX648216.1 U60800.1

16 DOTS entries:

DT.100707088 DT.425505 DT.216746 DT.99939187 DT.40222164 DT.101981557 DT.99933126 DT.100745499

DT.91763078 DT.95118872 DT.95275724 DT.95364573 DT.99939987 DT.121145382 DT.95299118 DT.99969380

24/229 AceView cDNA sequences (see all 229):

AA776123 H11569 BU151669 AW135867 T36191 AA742233 AW958939 BU428839

BM700197 BX109801 Z40069 AA435602 AA354809 AI094654 BX094225 BF438046

AI310454 F34704 AI796993 AI207156 AI422428 BI007339 U60800 BU198007

GeneLoc Exon Structure

5/8 Alternative Splicing Database (ASD) splice patterns (SP) for SEMA4D (see all 8) About this scheme

ExUns:	1	^	2	^	3	^	4	^	5	^	6	^	7	^	8a	·	8b	^	9	^	10	^	11a	·	11b	^	12a	·	12b	^	13	^	14	^	15	^	16	^	17	^	18	^	19	^	20	^	21	^	22a	·	22b	^
SP1:									-		-		-		-						-																												-
SP2:			-		-				-		-		-		-		-		-		-																												-
SP3:																					-																												-
SP4:					-				-		-		-		-		-				-
SP5:											-		-		-		-				-

ExUns:	23	^	24a	·	24b
SP1:
SP2:
SP3:
SP4:
SP5:

ECgene alternative splicing isoforms for SEMA4D

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

SEMA4D expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --

About this image

SEMA4D expression in embryonic tissues and stem cells

Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine About this table

2 LifeMap In Vivo Development Anatomical Compartments/Cells

Tissue

Anatomical Compartment

Cell

Category (developmental path)

Kidney

Umbilical Cord

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

See SEMA4D Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SEMA4D

SOURCE GeneReport for Unigene cluster: Hs.494406

UniProtKB/Swiss-Prot: SEM4D_HUMAN, Q92854

Tissue specificity: Strongly expressed in skeletal muscle, peripheral blood lymphocytes, spleen, and thymus and also

expressed at lower levels in testes, brain, kidney, small intestine, prostate, heart, placenta, lung and pancreas, but

not in colon and liver

SABiosciences Expression via Pathway-Focused PCR Array including SEMA4D:

Apoptosis 384HT in human mouse rat

Primer Products:		OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SEMA4D Browse OriGene validated miRNA SYBR primer pairs
		SABiosciences RT² qPCR Primer Assay in human, mouse, rat SEMA4D
		QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SEMA4D
		QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SEMA4D

In Situ
Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SEMA4D

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD , ⁵MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or ⁶Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of animals.

Orthologs for SEMA4D gene from 6/19 species (see all 19) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
chicken (Gallus gallus)	Aves	SEMA4D¹	sema domain, immunoglobulin domain (Ig), transmembrane more	68.17(n) 69.6(a)		396331 XM_424426.3 XP_424426.3
lizard (Anolis carolinensis)	Reptilia	SEMA4D⁶ SEMA3F⁶	--	67(a) 63(a)	1 ↔ 1 possible ortholog	2(36783277-36808585) GL343512.1(1500-9205)
African clawed frog (Xenopus laevis)	Amphibia	BU916292.1²	--	76.71(n)		BU916292.1
zebrafish (Danio rerio)	Actinopterygii	sema4d¹	sema domain, immunoglobulin domain (Ig), transmembrane more	57.36(n) 51.66(a)		100333323 XM_003200811.1 XP_003200859.1
fruit fly (Drosophila melanogaster)	Insecta	Sema-2a³	axon guidance	29(a) (best of 2)		--
worm (Caenorhabditis elegans)	Secernentea	mab-20⁶ smp-2⁶	SeMaPhorin related family member (smp-2)	22(a) 18(a)	possible ortholog possible ortholog	I(1644590-1651382) I(3667127-3671705)

ENSEMBL Gene Tree for SEMA4D (if available)
TreeFam Gene Tree for SEMA4D (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
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Paralogs for SEMA4D gene

SEMA3C² SEMA4F² SEMA3E² SEMA4B² SEMA3F² SEMA4C² SEMA4A² SEMA4G²

SEMA3A² SEMA3G² SEMA3D²

18/19 SIMAP similar genes for SEMA4D using alignment to 6 protein entries: SEM4D_HUMAN (see all proteins) (see all similar genes):

SEMA4D variant protein SEMA6D DKFZp686A04130 SEMA4G SEMA4C SEMA4B

SEMA4F DKFZp686D04248 SEMA4A SEMA3A SEMA6A SEMA6C

SEMA3F SEMA3C SEMA3B SEMA3D SEMA3E SEMA5B

SEMA4D for paralogs About GeneDecksing

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

SNP ID	Valid	Clinical significance	Chr 9 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs76414813^1,2		--	91975228(+)	`AGTAAA/GTAGCA`	1	--	int¹		2		CSA WA	120
rs143025922^1,2		--	91975241(+)	`TTGTGA/GTAAGT`	1	--	int¹		0	--	--	--	--
rs113747180^1,2		--	91975426(+)	`TCTAGG/TTCTGT`	1	--	int¹		1		CSA	2
rs141333226^1,2		--	91975432(+)	`TCTGTC/GATATT`	1	--	int¹		0	--	--	--	--
rs191190835^1,2		--	91975607(+)	`GAGGCC/TACTGC`	1	--	int¹		0	--	--	--	--
rs150779386^1,2		--	91975679(+)	`CCAGGA/GGCGCC`	1	--	int¹		0	--	--	--	--
rs113474806^1,2	C,	--	91975694(+)	`CAGTCATT/-ATTTA`	1	--	int¹		1		CSA	2
rs138133454^1,2		--	91975762(+)	`AAATTC/TATCCT`	1	--	ut3¹		0	--	--	--	--
rs183153974^1,2		--	91975814(+)	`CTTCAA/GGTATG`	1	--	ut3¹		0	--	--	--	--
rs111299804^1,2		--	91975892(+)	`CAAGAA/GTATAA`	1	--	ut3¹		2		CSA WA	120

HapMap Linkage Disequilibrium report for SEMA4D (91975702 - 92113045 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 8 variations for SEMA4D
4 CNVs: 65452 52886 65451 52887
4 Indels: 42507 47753 60757 100706

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QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SEMA4D

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section

SEMA4D for disorders           About GeneDecksing

OMIM gene information: 601866    OMIM disorders: --

14 diseases for SEMA4D:    About MalaCards

soft tissue sarcoma chronic lymphocytic leukemia lymphocytic leukemia hepatitis b

parkinson's disease sarcoma alzheimer's disease pancreatic cancer

leukemia pancreatitis hepatitis hypoxia

prostatitis neuronitis

4 Novoseek disease relationships for SEMA4D gene About this table

Disease	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
demyelination	26.7	1	14707103 (1)
carcinoma squamous cell	20.2	4	16754882 (1), 19762474 (1), 17204469 (1)
cancer	13.1	5	18559453 (1), 17204469 (1), 19805522 (1), 16055703 (1) (see all 5)
tumors	4.95	16	18559453 (4), 19762474 (3), 16754882 (1), 15569615 (1) (see all 5)

Human Genome Epidemiology (HuGE) Navigator: SEMA4D (3 documents)

Export disorders for SEMA4D gene to outside databases

(in PubMed. Associations of this gene to articles via ¹Entrez Gene, ²UniProtKB/Swiss-Prot, ³HGNC, ⁴GAD, ⁵PharmGKB, ⁶HMDB, ⁷DrugBank, ⁸UniProtKB/TrEMBL, ⁹ Novoseek, and/or ¹⁰fRNAdb)
About This Section

PubMed articles for SEMA4D gene, integrated from 9 sources (see all 77):
(articles sorted by number of sources associating them with SEMA4D)

Utopia: connect your pdf to the dynamic
world of online information

Human CD100, a novel leukocyte semaphorin that promotes B-cell aggregation and differentiation. (PubMed id 8876214)^{1, 2, 3, 9} Hall K.T.... Freeman G.J. (1996)
Semaphorin 4D/plexin-B1 induces endothelial cell migration through the activation of PYK2, Src, and the phosphatidylinositol 3-kinase-Akt pathway. (PubMed id 16055703)^{1, 2, 9} Basile J.R....Gutkind J.S. (2005)
Plexins are a large family of receptors for transmembrane, secreted and GPI-anchored semaphorins in vertebrates. (PubMed id 10520995)^{1, 2, 9} Tamagnone L.... Comoglio P.M. (1999)
Structural basis of semaphorin-plexin signalling. (PubMed id 20877282)^{1, 2} Janssen B.J....Jones E.Y. (2010)
The semaphorin 4D-plexin-B signalling complex regulat es dendritic and axonal complexity in developing neurons via diverse pathways. (PubMed id 19788569)^{1, 2} Vodrazka P....Kuner R. (2009)
Elucidation of N-glycosylation sites on human platelet proteins: a glycoproteomic approach. (PubMed id 16263699)^{1, 2} Lewandrowski U.... Sickmann A. (2006)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{1, 2} Ota T.... Sugano S. (2004)
DNA sequence and analysis of human chromosome 9. (PubMed id 15164053)^{1, 2} Humphray S.J.... Dunham I. (2004)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)^{1, 2} Gerhard D.S....Malek J. (2004)
The ligand-binding face of the semaphorins revealed by the high- resolution crystal structure of SEMA4D. (PubMed id 12958590)^{1, 2} Love C.A.... Esnouf R.M. (2003)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
Disorders
Free Text

Query String		PubMed OMIM NCBI Bookshelf
	(Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section

Entrez Gene: 10507	HGNC: 10732	AceView: SEMA4D	Ensembl:ENSG00000187764	euGenes: HUgn10507
ECgene: SEMA4D	Kegg: 10507	H-InvDB: SEMA4D

(According to HUGE)
About This Section

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

Name	Description
PharmGKB entry for SEMA4D	Pharmacogenomics, SNPs, Pathways
ATLAS Chromosomes in Cancer entry for SEMA4D	Genetics and Cytogenetics in Oncology and Haematology

Intellectual Property for SEMA4D gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

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Patent Information for SEMA4D gene:
Search GeneIP for patents involving SEMA4D

GeneCards and IP:
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