Tcf7l1 transcription factor 7 like 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tcf7l1provided by RGD
Official Full Name: transcription factor 7 like 1provided by RGD
Primary source: RGD:1311671
See related: Ensembl:ENSRNOG00000014753 AllianceGenome:RGD:1311671
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Tcf3
Summary: Predicted to enable several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and beta-catenin binding activity. Predicted to be involved in canonical Wnt signaling pathway and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including axial mesoderm morphogenesis; regulation of transcription, DNA-templated; and somatic stem cell population maintenance. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of beta-catenin-TCF complex. Orthologous to human TCF7L1 (transcription factor 7 like 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 15.8), Heart (RPKM 10.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q32

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (106238892..106404012, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (104680734..104846086, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (100492796..100660401, complement)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Scx and E47 might modulate the primary chondrogenesis by associating with the Sox9-related transcriptional complex, and by binding to the conserved E-box on Col2a1 promoter.
Title: Scleraxis and E47 cooperatively regulate the Sox9-dependent transcription.
The nuclear import of NeuroD1 and E47 is energy-dependent and involves the Ran-mediated pathway.
Title: Synergistic nuclear import of NeuroD1 and its partner transcription factor, E47, via heterodimerization.
the SREBP-1c.BETA2.E47 complex is in a DNA looping structure which is required for efficient recruitment of CREB-binding protein/p300
Title: Sterol regulatory element-binding proteins activate insulin gene promoter directly and indirectly through synergy with BETA2/E47.

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), detects polymorphism
- UniSTS:507272

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology 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
enables beta-catenin binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within anterior/posterior axis specification, embryo	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within axial mesoderm morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in canonical Wnt signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of somatic stem cell population maintenance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within skin development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within somatic stem cell population maintenance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within stem cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info

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 cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: transcription factor 7-like 1

Names: transcription factor 3; transcription factor 7-like 1 (T-cell specific, HMG-box)

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_001107865.1 → NP_001101335.1 transcription factor 7-like 1

See identical proteins and their annotated locations for NP_001101335.1

Status: PROVISIONAL

Source sequence(s)

CH473957

UniProtKB/TrEMBL

A6IAD2

Conserved Domains (2) summary

cd01388
Location:344 → 415

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:28 → 249

CTNNB1_binding; N-terminal CTNNB1 binding

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086022.1 Reference GRCr8

Range

106238892..106404012 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039107580.2 → XP_038963508.1 transcription factor 7-like 1 isoform X1

Conserved Domains (2) summary

cd01388
Location:359 → 430

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 vertebrates, and ...

pfam08347
Location:28 → 264

CTNNB1_binding; N-terminal CTNNB1 binding
XM_039107582.2 → XP_038963510.1 transcription factor 7-like 1 isoform X3

UniProtKB/TrEMBL

F1M1R9

Related

ENSRNOP00000020005.7

Conserved Domains (2) summary

cd01388
Location:345 → 416

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 vertebrates, and ...

pfam08347
Location:28 → 250

CTNNB1_binding; N-terminal CTNNB1 binding
XM_006236674.5 → XP_006236736.1 transcription factor 7-like 1 isoform X2

UniProtKB/TrEMBL

A0A8I5ZT78

Related

ENSRNOP00000081559.1

Conserved Domains (2) summary

cd01388
Location:358 → 429

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:28 → 263

CTNNB1_binding; N-terminal CTNNB1 binding