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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

TLCD2 Gene

protein-coding GIFtS: 37
GCID: GC17M001606

TLC domain containing 2

Search for TLCD2
in

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
TLC Domain Containing 2¹ ²
TLC Domain-Containing Protein 2²

External Ids:	HGNC: 33522¹	Entrez Gene: 727910²	Ensembl: ENSG00000185561⁷	UniProtKB: A6NGC4³

Export aliases for TLCD2 gene to outside databases

Previous GC identifers: GC17M001560 GC17M001505

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

(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_000017.10 NC_018928.1 NT_010718.16

Regulatory elements:

SABiosciences Regulatory transcription factor binding sites in the TLCD2 gene promoter:
E2F-4 E2F-3a E2F-5 Olf-1 E2F-2 CUTL1 HEN1 E2F E2F-1 Hlf
Other transcription factors

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Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TLCD2

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

Entrez Gene cytogenetic band: 17p13.3 Ensembl cytogenetic band: 17p13.3 HGNC cytogenetic band: 17p13.3

TLCD2 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TLCD2 gene location

GeneLoc information about chromosome 17 GeneLoc Exon Structure

GeneLoc location for GC17M001606: view genomic region (about GC identifiers)

Start:	1,606,084 bp from pter	End:	1,613,732 bp from pter
Size:	7,649 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: TLCD2_HUMAN, A6NGC4 (See protein sequence)

Recommended Name: TLC domain-containing protein 2

Size: 264 amino acids; 28733 Da

Subcellular location: Membrane; Multi-pass membrane protein (Potential)

Explore the universe of human proteins at neXtProt for TLCD2: NX_A6NGC4

Post-translational modifications:

View modification sites using PhosphoSitePlus²

View neXtProt modification sites for NX_A6NGC4

TLCD2 Protein expression data from MOPED and PaxDb: About this image

REFSEQ proteins: NP_001157879.1

ENSEMBL proteins:

ENSP00000331965

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Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0016021	integral to membrane	IEA	--

TLCD2 for ontologies About GeneDecksing

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

TLCD2 for domains About GeneDecksing

1 InterPro domain/family:

IPR006634 TLC-dom

Graphical View of Domain Structure for InterPro Entry A6NGC4

ProtoNet protein and cluster: A6NGC4

UniProtKB/Swiss-Prot: TLCD2_HUMAN, A6NGC4

Similarity: Belongs to the TLCD family

Similarity: Contains 1 TLC (TRAM/LAG1/CLN8) 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

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1 GenomeRNAi human phenotype for TLCD2:

Synthetic lethal with Ras

(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

Interactions:

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for TLCD2

(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

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(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,
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About This Section

REFSEQ mRNAs for TLCD2 gene:

NM_001164407.1

Unigene Cluster for TLCD2:

TLC domain containing 2

Hs.531005 [show with all ESTs]

Unigene Representative Sequence: NM_001164407

1 Ensembl transcript including schematic representation, and UCSC links where relevant:

ENST00000330676(uc021tnh.1)

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Additional cDNA sequence: AK000038.1

7 DOTS entries:

DT.99942524 DT.91912883 DT.433103 DT.100674683 DT.100716497 DT.99980794 DT.121003113

GeneLoc Exon Structure

(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

TLCD2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --

About this image

TLCD2 expression in embryonic tissues and stem cells

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

Stem Cell Differentiation: 1 LifeMap Cell

Name

Category

Definitive endoderm-like cells (A scalable, suspensi...)

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

See TLCD2 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TLCD2

SOURCE GeneReport for Unigene cluster: Hs.531005

SABiosciences Custom PCR Arrays for TLCD2

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In Situ
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(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 TLCD2 gene from 4/15 species (see all 15) About this table

Organism	Taxonomic classification	Gene	Description	Human Similarity	Orthology Type	Details
chicken (Gallus gallus)	Aves	TLCD2¹	TLC domain containing 2	61.7(n) 49.12(a)		427825 XM_425399.3 XP_425399.2
lizard (Anolis carolinensis)	Reptilia	TLCD2⁶	--	42(a)	1 ↔ 1	GL343393.1(119958-125828)
zebrafish (Danio rerio)	Actinopterygii	tlcd2¹	TLC domain containing 2	53.27(n) 39.29(a)		559420 NM_001110382.1 NP_001103852.1
worm (Caenorhabditis elegans)	Secernentea	CELE_Y63D3A.8¹	Protein Y63D3A.8	43.32(n) 32.49(a)		173280 NM_061065.4 NP_493466.2

ENSEMBL Gene Tree for TLCD2 (if available)
TreeFam Gene Tree for TLCD2 (if available)

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68)
About This Section

Paralogs for TLCD2 gene

TLCD1²

1 SIMAP similar gene for TLCD2 using alignment to 1 protein entry: TLCD2_HUMAN:

TLCD1

TLCD2 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 17 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs114765351^1,2		--	1605608(+)	`TGCTGG/CAATTA`	1	--	ds500¹		1		WA	118
rs139824861^1,2		--	1605788(+)	`ACAGGC/TGCCTG`	1	--	ds500¹		0	--	--	--	--
rs182487376^1,2		--	1605863(+)	`GGTCTC/TGAACC`	1	--	ds500¹		0	--	--	--	--
rs145370676^1,2		--	1605930(+)	`TGAGCC/TACTGC`	1	--	ds500¹		0	--	--	--	--
rs186847430^1,2		--	1606027(+)	`AGCATC/TGAATT`	1	--	ds500¹		0	--	--	--	--
rs145237679^1,2		--	1606079(+)	`AACCAC/TGCTCA`	1	--	ds500¹		0	--	--	--	--
rs3208965^1,2	F	--	1606212(-)	`CTTTGT/CCCTCC`	1	--	ut3¹		1		MN	184
rs3208964^1,2	F	--	1606242(-)	`CATGTC/TTACCA`	1	--	ut3¹		1		MN	184
rs149171766^1,2		--	1606280(+)	`GGCCAC/TGGTAA`	1	--	ut3¹		0	--	--	--	--
rs142163552^1,2		--	1606319(+)	`AGACTC/GCTACC`	1	--	ut3¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for TLCD2 (1606084 - 1613732 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 4 variations for TLCD2
4 CNVs: 49826 32148 30021 49827

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

(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 TLCD2 gene integrated from 9 sources:
(articles sorted by number of sources associating them with TLCD2)

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

When do Lasses (longevity assurance genes) become CerS (ceramide synthases)?: Insights into the regulation of ceramide synthesis. (PubMed id 16793762)^{1, 3} Pewzner-Jung Y....Futerman A.H. (2006)
DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)^{1, 2} Zody M.C.... Nusbaum C. (2006)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

		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, Kegg, and/or H-InvDB)
About This Section

Entrez Gene: 727910	HGNC: 33522	Ensembl:ENSG00000185561	euGenes: HUgn727910	ECgene: TLCD2
H-InvDB: TLCD2

(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 TLCD2	Pharmacogenomics, SNPs, Pathways

Intellectual Property for TLCD2 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

About This Section

Patent Information for TLCD2 gene:
Search GeneIP for patents involving TLCD2

GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences),
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TLCD2 Gene

TLC domain containing 2

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Genome Databases showing TLCD2 gene

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TLCD2 Gene

TLC domain containing 2

Aliasesfor TLCD2 gene

Summariesfor TLCD2 gene

Genomic Viewsfor TLCD2 gene

Proteinsfor TLCD2 gene

Protein Domains /Familiesfor TLCD2 gene

Functionfor TLCD2 gene

Pathways & Interactionsfor TLCD2 gene

Drugs & Compoundsfor TLCD2 gene

Transcriptsfor TLCD2 gene

Expression for TLCD2 gene

Orthologsfor TLCD2 gene

Paralogsfor TLCD2 gene

Genomic Variantsfor TLCD2 gene

Disorders / Diseasesfor TLCD2 gene

Publicationsfor TLCD2 gene

External Searches for TLCD2 gene

Genome Databases showing TLCD2 gene

Other Databases showing TLCD2 gene

Specialized Databases showing TLCD2 gene

Intellectual Propertyfor TLCD2 gene

Productsfor TLCD2 gene

View Random Gene

Aliases
for TLCD2 gene

Summaries
for TLCD2 gene

Genomic Views
for TLCD2 gene

Proteins
for TLCD2 gene

Protein Domains /
Families
for TLCD2 gene

Function
for TLCD2 gene

Pathways & Interactions
for TLCD2 gene

Drugs & Compounds
for TLCD2 gene

Transcripts
for TLCD2 gene

Expression
for TLCD2 gene

Orthologs
for TLCD2 gene

Paralogs
for TLCD2 gene

Genomic Variants
for TLCD2 gene

Disorders / Diseases
for TLCD2 gene

Publications
for TLCD2 gene

Intellectual Property
for TLCD2 gene

Products
for TLCD2 gene