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C10orf27 Gene

protein-coding GIFtS: 43

GC10M072201

chromosome 10 open reading frame 27
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database

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

Aliases
FLJ32820 ^¹, ²
OTTHUMP00000019760 ^²
spatial ^¹, ²

Descriptions
Stromal protein associated with thymii and lymph node homolog ^³
chromosome 10 open reading frame 27 ^²
stromal protein associated with thymii and lymph nodes ^²

External Ids
HGNC: 23511¹
Entrez Gene: 219793²
UniProtKB: Q96M53³
Ensembl: ENSG00000166220⁷

Search outside databases for aliases for C10orf27 gene

Previous GC identifer: GC10M071875

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

UniProtKB/Swiss-Prot: SPATL_HUMAN, Q96M53

Function: May play a role in spermatid differentiation (By similarity)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:

UCSC Golden Path with GeneCards custom track

Transcription factor binding sites upstream to the C10orf27 gene

Entrez Gene cytogenetic band: 10q22.1 Ensembl cytogenetic band: 10q22.1 HGNC cytogenetic band: 10q22.2

C10orf27 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 10 GeneLoc Exon Structure

GeneLoc location for GC10M072201: (about GC identifiers)

Start:	72,201,001 bp from pter
End:	72,215,163 bp from pter
Size:	14,163 bases
Orientation:	minus strand

RefSeq DNA sequence:

NC_000010.9 NT_008583.16

(According to ¹UniProtKB, and/or Ensembl, Phosphorylation sites according to ²Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: SPATL_HUMAN, Q96M53 (See protein sequence)

Recommended Name: Protein SPATIAL

Size: 351 amino acids; 39432 Da

Subcellular location: Cytoplasm, cytosol (By similarity)

Secondary accessions: A4QPA8 B2RPQ2 Q5T4G2

Alternative splicing: 2 isoforms: Q96M53-1 Q96M53-2

REFSEQ proteins: NP_689923.2

ENSEMBL proteins:

ENSP00000299290 ENSP00000378433

Human Recombinant Proteins

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Browse Origene for full length recombinant human proteins expressed in human HEK293 cells

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005737	cytoplasm	IEA	--
GO:0005829	cytosol	ISS	--

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Antibodies for C10orf27:

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	Browse R&D Systems for Antibodies
	Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
	Browse Abnova for Monoclonal and Polyclonal Antibodies
	Search Novus for antibodies for C10orf27

Assays for C10orf27:

	Browse Invitrogen for biochemical assays
	Browse Kits and Assays available from Millipore
	Browse R&D Systems for biochemical assays
	Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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ProtoNet protein and cluster: Q96M53

UniProtKB/Swiss-Prot: SPATL_HUMAN, Q96M53

Similarity: Belongs to the spatial family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (C10orf27)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_152710

Applied Biosystems Silencer® siRNAs for C10orf27

Sigma-Aldrich siRNA for C10orf27

Sigma-Aldrich shRNA for C10orf27

Explore Sigma-Aldrich super-pooled esiRNAs

Clones:		Browse Clone Ranger at Invitrogen for clones
		Browse Clones for the Expression of Recombinant Proteins Available from Millipore

OriGene GFP tagged cDNA clone in CMV expression vector: NM_152710
Myc/DDK tagged cDNA clone in CMV expression vector: NM_152710
untagged cDNA clone in CMV expression vector: NM_152710

Primers:

Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers

OriGene genome-wide validated SYBR primer pairs: NM_152710

UniProtKB/Swiss-Prot: SPATL_HUMAN, Q96M53

Function: May play a role in spermatid differentiation (By similarity)

1 Gene Ontology (GO) molecular function term (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005515	protein binding	ISS	--

About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to ¹UniProtKB, ²MINT, and/or ³STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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3 Gene Ontology (GO) biological process terms (links to tree view):

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0007275	multicellular organismal development	IEA	--
GO:0007283	spermatogenesis	IEA	--
GO:0030154	cell differentiation	IEA	--

About this table

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences

Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for C10orf27

(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib. RNA:		Invitrogen RNAi Products for gene knock-down (C10orf27)
		Browse for Gene Knock-down Tools from Millipore
		Browse Abnova for Chimera RNAi Products

OriGene 29mer shRNA kit in GFP-retroviral vector: NM_152710

Sigma-Aldrich siRNA for C10orf27

Sigma-Aldrich shRNA for C10orf27

Explore Sigma-Aldrich super-pooled esiRNAs

Applied Biosystems Silencer® siRNAs:

NM_152710

REFSEQ mRNAs for C10orf27 gene:

NM_152710.2

Applied Biosystems TaqMan ® Gene Expression Assays:

NM_152710

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_152710
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_152710
                                 untagged cDNA clone in CMV expression vector: NM_152710

Additional cDNA sequence:

AK057382.1 AK124147.1 AK303242.1 AK303344.1 AK303491.1 AK310699.1 AK310732.1 BC127867.1

BC137543.1 BC137544.1 BC144692.1 BC144694.1 BC144695.1

8 DOTS entries:

DT.99940926 DT.101966983 DT.121231769 DT.121231768 DT.121231772 DT.121231770 DT.75115486 DT.92046204

18 AceView cDNA sequences:

BP368090 AI352340 AK124147 BP368189 BP366436 BP366731 NM_152710 BP366417

BC060774 BP368024 BX106847 AK057382 AI216494 AI017747 BP366738 AW172453

BI561350 AW269004

highest scoring ESTs for C10orf27:

AI017747 AK057382 AI216494 BC060774 BI561350 BX106847 NM_152710 AI352340 AK124147 AW172453

Unigene Cluster for C10orf27:

Chromosome 10 open reading frame 27

Hs.386698 [show with all ESTs]

Unigene Representative Sequence: AK124147

GeneLoc Exon Structure

5/14 Alternative Splicing Database (ASD) splice patterns (SP) for C10orf27 (see all 14 )

ExUns:	1a	·	1b	^	2	^	3	^	4	^	5a	·	5b	^	6a	·	6b	·	6c	^	7a	·	7b	·	7c	^	8a	·	8b	·	8c	·	8d	·	8e	^	9a	·	9b	·	9c	^	10a	·	10b	·	10c	·	10d	·	10e	^
SP1:									-		-				-										-		-														-
SP2:									-		-																-														-
SP3:
SP4:															-		-		-		-		-		-		-														-
SP5:															-		-		-		-		-		-		-														-

ExUns:	11	^	12a	·	12b
SP1:			-
SP2:
SP3:
SP4:
SP5:

About this scheme

ECgene alternative splicing isoforms for C10orf27

2 Ensembl transcripts including schematic representations:

ENST00000299290 ENST00000394982

(Experimental results according to ¹GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to ²GeneAnnot , ³GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

C10orf27 expression in normal and diseased human tissues

Applied Biosystems TaqMan ® Gene Expression Assays for C10orf27

¹ / ² / ³

4 probe-sets matching C10orf27 gene

Affymetrix probe-set	Array	# genes	Sensitivity	Specificity	Correlation	Length	Gb_Accession	Consensus	Uniqueness	Score	Rank
Affymetrix probe-set	Array	GeneAnnot data			GeneNote data		GeneTide data
77944_r_at²^{, 3}	U95-D	1	1.00	1.00	0.88	1.33	AI017747	0.80	1.00	0.91	1
77940_at²^{, 3}	U95-D	1	1.00	1.00	0.96	0.71	AI216494	0.60	1.00	0.82	1
77942_s_at²^{, 3}	U95-D	1	1.00	1.00	0.96	1.01	AI017747	0.80	1.00	0.91	1
1552887_at²	U133Plus2	1	1.00	1.00	--	--	--	--	--	--	--

GeneDecks C10orf27 for binary patterns associated with the probe-sets selected above

About GeneDecksing

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Data from

(Publications) and GNF BioGPS
About these images
About these images

CGAP SAGE TAG: AACCTCCTCA

SOURCE GeneReport for Unigene cluster: Hs.386698

(Orthologs according to ^1,2HomoloGene (²older version, for species not in ¹newer version), ³euGenes, ⁴SGD and/or ⁵MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section

Orthologs for C10orf27 gene from 5/6 species (see all 6 )

Organism	Gene	Locus	Description	Human Similarity	NCBI accessions
dog (Canis familiaris)	LOC609672¹	--	similar to stromal protein associated with thymii and more	81.24(n) 75.71(a)	609672 XM_846972.1 XP_852065.1
chimpanzee (Pan troglodytes)	LOC749032¹	--	similar to chromosome 10 open reading frame 27	99.07(n) 98.14(a)	749032 XM_001164949.1 XP_001164949.1
cow (Bos taurus)	C28H10ORF27¹	--	chromosome 10 open reading frame 27 ortholog	82.01(n) 75.91(a)	515913 NM_001038121.1 NP_001033210.1
rat (Rattus norvegicus)	RGD1561665¹	--	similar to spatial-delta	74.37(n) 64.16(a)	499429 XM_574753.2 XP_574753.2
mouse (Mus musculus)	1700021K02Rik^{1, 5}	10⁵	RIKEN cDNA 1700021K02 gene^{1, 5}	75.63(n)¹ 67.84(a)¹	65971¹ NM_001017419.1¹ NP_001017419.1¹ AA140453⁵ AF257502⁵ (see all 23)

About this table Species with no ortholog for C10orf27

ENSEMBL Gene Tree for C10orf27

(Paralogs according to ¹HomoloGene
and ²Ensembl, Pseudogenes according to ³Pseudogene.org)
About This Section

(According to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section

10/123 NCBI SNPs in C10orf27 are shown (see all 123 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay) (see all 122)

AB	SNP ID	Valid	Chr 10 pos	Sequence	Recs	AA Chg	Type	More	Recs	Pop	Total sample	More
AB	Genomic Data				Transcription Data				Allele Frequencies
				--	--	--		--	--			--
	rs2254174^1,2	A,C,F,H	72205013(+)	`GGATCT/CGACAC`	1	R/Q	mis¹ ese³		17	EA NA EU WA	1494
	rs2185348^1,2	A,C,F,H	72217153(-)	`aactAA/GAGATT`	1	--	ng3¹		4	EU EA WA	410
	rs3824762^1,2	A,C,F,H	72215593(-)	`CAGCTG/ATCATG`	1	--	ng3¹		13	EA EU WA NA	2684
	rs2185349^1,2	A,C,F,H	72216757(-)	`AGCTCG/ACGTGG`	1	--	ng3¹ tfbs³		5	EA EU WA	1916
	rs2153376^1,2	C,F,H	72216954(-)	`ACTCCA/GCAAAG`	1	--	ng3¹		9	NA EA MN EU WA	2370
	rs16927981^1,2	C,F,H	72216589(+)	`GAATAC/AGGTGA`	1	--	ng3¹		7	NA EU EA WA	556
	rs2185350^1,2	F,H	72216703(-)	`CTTGTC/GACGGG`	1	--	ng3¹		6	EU EA WA	598
	rs12415264^1,2	C,H	72202320(+)	`TCTTCG/AGGGAT`	1	L/P	mis¹ ese³		4	EU EA WA	420
	rs11594191^1,2	H	72216671(+)	`ATATAG/CCATTT`	1	--	ng3¹		4	EU EA WA	416
	rs10999539^1,2	H	72215739(+)	`CTATTC/TTGCTA`	1	--	ng3¹		4	EU EA WA	410

About this table

HapMap Linkage Disequilibrium images for C10orf27 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 612640

Human Genome Epidemiology Navigator: C10orf27 (1 document)

(Possibly Related Articles in Doctor's Guide)
About This Section

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

6 PubMed articles for C10orf27 gene:

The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)^{3, 4} Deloukas P.... Rogers J. (2004)
Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{3, 4} Ota T....Sugano S. (2004)
Evidence for association of chromosome 10 open reading frame (C10orf27) gene polymorphisms and multiple sclerosis. (PubMed id 18208870)³ Goertsches R....Comabella M. (2008)
Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)³ Kimura K.... Sugano S. (2006)
The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)⁴ Gerhard D.S....Malek J. (2004)
Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)³ Strausberg R.L....Marra M.A. (2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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		AND	OR
Aliases
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, and/or H-InvDB)
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Entrez Gene: 219793	HGNC: 23511	AceView: C10orf27	Ensembl:ENSG00000166220	euGenes: HUgn219793
ECgene: C10orf27	H-InvDB: C10orf27

(According to HUGE)
About This Section

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

Licensable Technologies for C10orf27
(Available from WIS Yeda, Salk, Tufts)

About This Section

(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
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Products for C10orf27:

TaqMan ® Gene Expression Assays

TaqMan ® Genotyping Assays

Free SNP selection tool

Invitrogen iPath Pathways	Invitrogen BLOCK-iT™ RNAi
Invitrogen Antibodies	Invitrogen Assays
Invitrogen Clones	Invitrogen Q-PCR Products
Invitrogen Human Recombinant Kinases	Invitrogen Custom Antibody and Peptide Service
Invitrogen Proteins / Assays / Screening Services	Search Invitrogen catalog for C10orf27-related products

	Millipore Custom Antibody & Bulk Services
	Millipore Preclinical / Clinical Development Services
	Millipore Immunoassay Services
	Millipore Target Screening & Profiling Services

	Predesigned and custom siRNAs for C10orf27		Browse antibodies at Sigma-Aldrich
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C10orf27 Gene

protein-coding GIFtS: 43

Aliases &
Descriptions
for C10orf27

Summaries
for C10orf27

Genomic Location
for C10orf27

Proteins
for C10orf27

Protein Domains/
Families
for C10orf27

Gene Function
for C10orf27

Pathways & Interactions
for C10orf27

Drugs & Compounds
for C10orf27

Transcripts
for C10orf27

Expression
for C10orf27

Orthologs
for C10orf27

Paralogs
for C10orf27

SNPs/Variants
for C10orf27

Disorders & Mutations
for C10orf27

Medical News
for C10orf27

Publications
for C10orf27

Search for C10orf27

Genome Databases showing C10orf27

Other Databases showing C10orf27

Specialized Databases showing C10orf27

Licensable Technologies
for C10orf27

Services
for C10orf27

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

C10orf27 Gene

protein-coding GIFtS: 43

Aliases & Descriptionsfor C10orf27

Summariesfor C10orf27

Genomic Locationfor C10orf27

Proteinsfor C10orf27

Protein Domains/Familiesfor C10orf27

Gene Functionfor C10orf27

Pathways & Interactionsfor C10orf27

Drugs & Compoundsfor C10orf27

Transcriptsfor C10orf27

Expression for C10orf27

Orthologsfor C10orf27

Paralogsfor C10orf27

SNPs/Variantsfor C10orf27

Disorders & Mutationsfor C10orf27

Medical Newsfor C10orf27

Publicationsfor C10orf27

Search for C10orf27

Genome Databases showing C10orf27

Other Databases showing C10orf27

Specialized Databases showing C10orf27

Licensable Technologiesfor C10orf27

Servicesfor C10orf27

Gene Index: 3 5 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Aliases &
Descriptions
for C10orf27

Summaries
for C10orf27

Genomic Location
for C10orf27

Proteins
for C10orf27

Protein Domains/
Families
for C10orf27

Gene Function
for C10orf27

Pathways & Interactions
for C10orf27

Drugs & Compounds
for C10orf27

Transcripts
for C10orf27

Expression
for C10orf27

Orthologs
for C10orf27

Paralogs
for C10orf27

SNPs/Variants
for C10orf27

Disorders & Mutations
for C10orf27

Medical News
for C10orf27

Publications
for C10orf27

Licensable Technologies
for C10orf27

Services
for C10orf27