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Category Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21

GIFtS
-

TDGF1P3 Gene

pseudogene GIFtS: 33
GCID: GC0XP109765

teratocarcinoma-derived growth factor 1 pseudogene 3

(Previous names: teratocarcinoma-derived growth factor 3, pseudogene )
(Previous symbol: TDGF3)

Explore 14 diseases affiliated with
TDGF1P3 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

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Teratocarcinoma-Derived Growth Factor 1 Pseudogene 3¹ ² ³		Teratocarcinoma-Derived Growth Factor 3, Pseudogene¹
CRIPTO3¹ ² ³		CRIPTO²
TDGF2¹ ² ³		TDGF1²
TDGF3¹ ² ³		Cripto-3 Growth Factor³
CR-3¹ ²		Epidermal Growth Factor-Like Cripto Protein CR3³
CRIPTO-3¹ ²

External Ids:	HGNC: 11703¹	Entrez Gene: 6998²	Ensembl: ENSG00000225366⁷	UniProtKB: P51864³

ORGUL members:
	NONCODE:n385808

Export aliases for TDGF1P3 gene to outside databases

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

Entrez Gene summary for TDGF1P3:

The TDGF3 locus has characteristics of a retrotransposon, including lack of introns and a poly(A) sequence. (provided

by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: TDGF3_HUMAN, P51864

Function: Could play a role in the determination of the epiblastic cells that subsequently give rise to the mesoderm.

Activates the Nodal-dependent signaling pathway

(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_000023.10 NC_018934.1 NT_011651.17

Regulatory elements:

Search SABiosciences Regulatory transcription factor binding sites for TDGF1P3
Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: TDGF1P3 promoter sequence

Search SABiosciences Chromatin IP Primers for TDGF1P3

Epigenetics:

QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TDGF1P3

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

Entrez Gene cytogenetic band: Xq22.3 Ensembl cytogenetic band: Xq23 HGNC cytogenetic band: Xq23

TDGF1P3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TDGF1P3 gene location

GeneLoc information about chromosome X GeneLoc Exon Structure

GeneLoc location for GC0XP109765: view genomic region (about GC identifiers)

Start:	109,763,540 bp from pter	End:	109,766,249 bp from pter
Size:	2,710 bases	Orientation:	plus 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,
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About This Section

UniProtKB/Swiss-Prot: TDGF3_HUMAN, P51864 (See protein sequence)

Recommended Name: Putative teratocarcinoma-derived growth factor 3

Size: 188 amino acids; 21181 Da

Subcellular location: Cell membrane

Caution: Could be the product of a pseudogene. The TDGF3 locus has characteristics of a retrotransposon, including lack

of introns and a poly(A) sequence

Explore the universe of human proteins at neXtProt for TDGF1P3: NX_P51864

TDGF1P3 Protein expression data from MOPED and PaxDb: --

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Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0005886	plasma membrane	IEA	--
GO:0009279	cell outer membrane	IDA	18835250

TDGF1P3 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

TDGF1P3 for domains About GeneDecksing

3 InterPro domains/families:

IPR019011 Cryptic/Cripto_CFC-dom

IPR013032 EGF-like_CS

IPR017047 Cripto_growth_factor

Graphical View of Domain Structure for InterPro Entry P51864

ProtoNet protein and cluster: P51864

UniProtKB/Swiss-Prot: TDGF3_HUMAN, P51864

Similarity: Contains 1 EGF-like 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: TDGF3_HUMAN, P51864

Function: Could play a role in the determination of the epiblastic cells that subsequently give rise to the mesoderm.

Activates the Nodal-dependent signaling pathway

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

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0008083	growth factor activity	NAS	1882841

TDGF1P3 for ontologies 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

Interactions:

Search SABiosciences Gene Network Central^TM Interacting Genes and Proteins Networks for TDGF1P3

Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table

GO ID	Qualified GO term	Evidence	PubMed IDs
GO:0007165	signal transduction	IDA	18835250
GO:0007500	mesodermal cell fate determination	NAS	--

TDGF1P3 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

TDGF1P3 for compounds About GeneDecksing

Browse Small Molecules at EMD Millipore

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Browse Tocris compounds for TDGF1P3
2 Novoseek chemical compound relationships for TDGF1P3 gene About this table

Compound	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
retinoic acid	15.4	6	8635871 (2), 9285688 (2)
agar	14.2	4	8635871 (2), 8302592 (1)

Search CenterWatch for drugs/clinical trials and news about TDGF1P3

(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

Unigene Cluster for TDGF1P3:

Teratocarcinoma-derived growth factor 1 pseudogene 3

Hs.592361 [show with all ESTs]

Unigene Representative Sequence: NR_002718

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

ENST00000493351(uc004eos.1)

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Additional cDNA sequence:

M96956.1 NR_002718.2

5 DOTS entries:

DT.100725583 DT.213859 DT.102830280 DT.120853654 DT.120853660

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

TDGF1P3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: CTCTTCAGAA

About this image

TDGF1P3 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

Line H9 (WA09) (Embryonic Stem Cell)

Early Embryo, Inner Cell Mass

Expression:

Positive

Negative

Selective marker

Experimental details:

Curated

Microarrays

In-situ hybridization

Genevestigator expression for TDGF1P3

SOURCE GeneReport for Unigene cluster: Hs.592361

UniProtKB/Swiss-Prot: TDGF3_HUMAN, P51864

Tissue specificity: Expressed weakly in lung, colon and breast. Expressed also strongly in primary cancer tissues; lung

and colon cancers

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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

--

ENSEMBL Gene Tree for TDGF1P3 (if available)
TreeFam Gene Tree for TDGF1P3 (if available)

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

(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 X pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
Genomic Data					Transcription Related Data				Allele Frequencies
				--	--	--		--	--
rs5942952^1,2	C,F,A,H,	--	109761594(+)	`ATGAGT/AAAACA`	1	--	us2k¹		6		WA NA CSA	12
rs60014824^1,2	C,	--	109761683(+)	`TCTCCA/CGTTCA`	1	--	us2k¹		0	--	--	--	--
rs181417990^1,2		--	109761768(+)	`ATGGCA/GGGCAC`	1	--	us2k¹		0	--	--	--	--
rs185270215^1,2		--	109761782(+)	`CACCAC/GAGAGA`	1	--	us2k¹		0	--	--	--	--
rs5942953^1,2	C,F,A,H,	--	109761850(+)	`AAATCA/CCAGTC`	1	--	us2k¹		24		NS EA NA WA CSA	2307
rs188409542^1,2		--	109761900(+)	`ACATGC/TGAACA`	1	--	us2k¹		0	--	--	--	--
rs181867089^1,2		--	109762181(+)	`CTTGTG/TTGCGT`	1	--	us2k¹		0	--	--	--	--
rs146817393^1,2		--	109762326(+)	`GCTAAA/GTGCTA`	1	--	us2k¹		0	--	--	--	--
rs187085476^1,2		--	109762544(+)	`ATCAGC/TATAAA`	1	--	us2k¹		0	--	--	--	--
rs148970340^1,2		--	109762551(+)	`TAAATG/TAATCA`	1	--	us2k¹		0	--	--	--	--

HapMap Linkage Disequilibrium report for TDGF1P3 (109763540 - 109766249 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for TDGF1P3: --

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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

TDGF1P3 for disorders About GeneDecksing

14 diseases for TDGF1P3: About MalaCards

teratocarcinoma germ cell tumor bladder carcinoma skin disease

endometrial carcinoma colon carcinoma embryonal carcinoma carcinoma

colon cancer gastric cancer pancreatic cancer colorectal cancer

lung cancer pancreatitis

10/16 Novoseek disease relationships for TDGF1P3 gene (see all 16) About this table

Disease	-log (P-Val)	Hits	PubMed IDs for Articles with Shared Sentences (# sentences)
teratocarcinoma	64.5	3	9285688 (1), 8661720 (1), 10393436 (1)
colorectal carcinoma	52.2	5	1938601 (3), 8669884 (1), 1715580 (1)
colon carcinoma	50.1	4	8302592 (1), 9466051 (1)
carcinoma embryonal	46.1	9	9285688 (4), 8635871 (3)
colorectal tumors	45.3	1	8302592 (1)
bladder carcinoma	41.1	1	8976875 (1)
colon cancer	41.1	9	8302592 (2), 10024674 (1), 1715580 (1)
carcinoma	36.9	4	8976875 (1), 9641241 (1), 7814196 (1), 1938601 (1)
endometrial carcinoma	33.6	2	9641241 (2)
adenoma	26.5	1	8976875 (1)

Export disorders for TDGF1P3 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 TDGF1P3 gene, integrated from 9 sources (see all 35):
(articles sorted by number of sources associating them with TDGF1P3)

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

Isolation and characterization of the CRIPTO autosomal gene and its X-linked related sequence. (PubMed id 1882841)^{1, 2, 3} Dono R....Persico M.G. (1991)
CRIPTO3, a presumed pseudogene, is expressed in cancer. (PubMed id 18835250)^{1, 2, 9} Sun C....Carulli J.P. (2008)
The DNA sequence of the human X chromosome. (PubMed id 15772651)^{1, 2} Ross M.T.... Bentley D.R. (2005)
Germ cell nuclear factor is a repressor of CRIPTO-1 and CRIPTO-3. (PubMed id 16954206)¹ Hentschke M....Hubner C.A. (2006)
Transfection with a CRIPTO anti-sense plasmid suppresses endogenous CRIPTO expression and inhibits transformation in a human embryonal carcinoma cell line. (PubMed id 8635871)⁹ Baldassarre G....Ciardiello F. (1996)
Expression of teratocarcinoma-derived growth factor-1 (TDGF-1) in testis germ cell tumors and its effects on growth and differentiation of embryonal carcinoma cell line NTERA2/D1. (PubMed id 9285688)⁹ Baldassarre G....Viglietto G. (1997)
TDGF1 is a novel predictive marker for metachronous m etastasis of colorectal cancer. (PubMed id 20126975)⁹ Miyoshi N....Mori M. (2010)
Cripto, a member of the epidermal growth factor family, is over-expressed in human pancreatic cancer and chronic pancreatitis. (PubMed id 8314343)⁹ Friess H....Korc M. (1994)
Inhibition of CRIPTO expression and tumorigenicity in human colon cancer cells by antisense RNA and oligodeoxynucleotides. (PubMed id 8302592)⁹ Ciardiello F....Persico M.G. (1994)
(PubMed id 17490101)⁹

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

		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: 6998	HGNC: 11703	Ensembl:ENSG00000225366	euGenes: HUgn6998	ECgene: TDGF1P3
H-InvDB: TDGF1P3

(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 TDGF1P3	Pharmacogenomics, SNPs, Pathways

Intellectual Property for TDGF1P3 gene
(Patent information from GeneIP, Licensable technologies from WIS Yeda, Salk, Tufts, IP news from LifeMap Sciences, Inc.)

About This Section

Patent Information for TDGF1P3 gene:
Search GeneIP for patents involving TDGF1P3

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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GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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Category			VWF (GIFTS: 73) von Willebrand factor
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The GeneCards human gene database gene index: 1 3 5 6 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

The GeneCards Human Gene Database

Developed at the Crown Human Genome Center, Department of Molecular Genetics, the Weizmann Institute of Science

Hot genes Disease genes TDGF1P3 gene at Home site.

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TDGF1P3 Gene

teratocarcinoma-derived growth factor 1 pseudogene 3

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TDGF1P3 Gene

teratocarcinoma-derived growth factor 1 pseudogene 3

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