tcf7l2 transcription factor 7 like 2 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: tcf7l2provided by ZNC
Official Full Name: transcription factor 7 like 2provided by ZNC
Primary source: ZFIN:ZDB-GENE-991110-8
See related: Ensembl:ENSDARG00000004415 AllianceGenome:ZFIN:ZDB-GENE-991110-8
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: tcf4
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in digestive system development. Acts upstream of or within several processes, including diencephalon development; exocrine pancreas development; and intestinal epithelial structure maintenance. Located in nucleus. Is expressed in several structures, including anterior neural plate; brain; digestive system; gonad; and sensory system. Used to study type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in colorectal cancer; diabetes mellitus (multiple); pancreatic cancer; and prostate cancer. Orthologous to human TCF7L2 (transcription factor 7 like 2). [provided by Alliance of Genome Resources, Apr 2022]
Annotation information: Annotation category: partial on reference assembly
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 12

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	12	NC_007123.7 (30981684..31103187, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	12	NC_007123.6 (30866782..30988285, complement)

Chromosome 12 - NC_007123.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Here, the authors study the function of zebrafish tcf7l2alternative splice variants and show that only variants that include exon five or an analogous human tcf7l2 variant can effectively provide compensatory repressor function to restore eye formation in embryos lacking tcf7l1a/tcf7l1b function.
Title: Developmentally regulated Tcf7l2 splice variants mediate transcriptional repressor functions during eye formation.
Tcf7l2 is essential for lateralized fate selection by habenular neurons that can differentiate along two alternative pathways, thereby leading to major neural circuit asymmetries.
Title: Tcf7l2 is required for left-right asymmetric differentiation of habenular neurons.
Dorsal and ventral habenulae develop in different regions of prosomere 2. In the process of ventral habenula formation, functional tcf7l2 gene activity is required and in its absence, ventral habenular neurons do not develop.
Title: The ventral habenulae of zebrafish develop in prosomere 2 dependent on Tcf7l2 function.
This study reveals that Tcf4 (tcf7l2) is the major effector of Wnt signaling in the intestine during zebrafish organogenesis.
Title: T-cell factor 4 (tcf7l2) is the main effector of Wnt signaling during zebrafish intestine organogenesis.
Study underscores the involvement of Tcf4 in maintaining proliferative self-renewal in the intestine throughout life.
Title: T-cell factor 4 (Tcf7l2) maintains proliferative compartments in zebrafish intestine.
In embryos, the tcf4 gene is highly regulated at the level of RNA splicing such that the variant proteins that are produced contain or lack domains proposed to be essential in repression or activation of transcription.
Title: Expression and splice variant analysis of the zebrafish tcf4 transcription factor.

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General gene information

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Markers

z43542b (e-PCR), detects polymorphism
- UniSTS:238609

G39259 (e-PCR)
- UniSTS:9349

G39915 (e-PCR)
- UniSTS:78256

tcf4 (e-PCR), detects polymorphism
- UniSTS:205494

z1146 (e-PCR), detects polymorphism
- UniSTS:204775

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in canonical Wnt signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within canonical Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in canonical Wnt signaling pathway	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within determination of left/right asymmetry in diencephalon	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in digestive system development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in embryo development	IEA Inferred from Electronic Annotation more info
involved_in epithelium development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within exocrine pancreas development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within habenula development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within intestinal epithelial structure maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within response to lithium ion	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of beta-catenin-TCF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of catenin-TCF7L2 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of chromatin	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: transcription factor 7-like 2

Names: transcription factor 7-like 2 (T-cell specific, HMG-box); transcription factor tcf4

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.