tcf7l1a transcription factor 7 like 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: tcf7l1aprovided by ZNC
Official Full Name: transcription factor 7 like 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-980605-30
See related: Ensembl:ENSDARG00000038159 AllianceGenome:ZFIN:ZDB-GENE-980605-30
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: tcf3; tcf-3; tcf3a
Summary: Enables DNA binding activity. Involved in regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including cell proliferation in dorsal spinal cord; negative regulation of Wnt signaling pathway; and nervous system development. Located in nucleus. Is expressed in several structures, including axis; digestive system; midbrain neural keel; nervous system; and posterior neural tube. Orthologous to human TCF7L1 (transcription factor 7 like 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 10

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	10	NC_007121.7 (42195732..42297889, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	10	NC_007121.6 (42367352..42469509, complement)

Chromosome 10 - NC_007121.7 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?

a forward genetic screen identified mutations in hesx1, cct5 and gdf6a, which give synthetically enhanced eye specification or growth phenotypes when in combination with the tcf7l1a mutation.
Title: Compensatory growth renders Tcf7l1a dispensable for eye formation despite its requirement in eye field specification.
Tcf7l1 defines the border between the neural crest and the prospective forebrain via restriction of the Wnt/beta-catenin signaling gradient.
Title: Tcf7l1 protects the anterior neural fold from adopting the neural crest fate.
results argue that during anterior-posterior patterning of the mesoderm Tcf7l1 proteins are cell autonomously required to limit Wnt signaling
Title: Tcf7l1 proteins cell autonomously restrict cardiomyocyte and promote endothelial specification in zebrafish.
Results indicate that Tcf7l1 plays an important role in spinal cord progenitor maintenance
Title: Tcf7l1 is required for spinal cord progenitor maintenance.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

TCF3 (e-PCR)
- UniSTS:205356

fd03e11.y1 (e-PCR)
- UniSTS:194880

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
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 DNA-binding transcription factor activity, RNA polymerase II-specific	TAS Traceable Author Statement more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

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 cell proliferation in dorsal spinal cord	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic camera-type eye formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic camera-type eye morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within endothelial cell fate specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within endothelial cell fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within forebrain development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in generation of neurons	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within generation of neurons	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within head morphogenesis	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within heart development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within midbrain development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of Wnt signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within positive regulation of cell population proliferation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within rostrocaudal neural tube patterning	IMP Inferred from Mutant Phenotype more info	PubMed
NOT acts_upstream_of_or_within spinal cord dorsal/ventral patterning	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
part_of beta-catenin-TCF 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
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: transcription factor 7-like 1-A

Names: HMG box transcription factor 3-A; HMG-box transcription factor; Headless/Tcf3; TCF-3-A; hdl; headless; protein headless; transcription factor 7-like 1a (T-cell specific, HMG-box); transcription factor tcf3; zTcf-3

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.

mRNA and Protein(s)

NM_131269.2 → NP_571344.1 transcription factor 7-like 1-A

See identical proteins and their annotated locations for NP_571344.1

Status: PROVISIONAL

Source sequence(s)

BC053135

UniProtKB/Swiss-Prot

Q9YHE8

Related

ENSDARP00000090035.2, ENSDART00000099262.4

Conserved Domains (2) summary

cd01388
Location:328 → 399

SOX-TCF_HMG-box; SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and ...

pfam08347
Location:1 → 233

CTNNB1_binding; N-terminal CTNNB1 binding