Scx scleraxis bHLH transcription factor [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Scxprovided by RGD
Official Full Name: scleraxis bHLH transcription factorprovided by RGD
Primary source: RGD:1588254
See related: AllianceGenome:RGD:1588254
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
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and bHLH transcription factor binding activity. Predicted to contribute to E-box binding activity. Predicted to be involved in several processes, including collagen fibril organization; regulation of transcription, DNA-templated; and skeletal system development. Predicted to act upstream of or within several processes, including cellular response to growth factor stimulus; cellular response to mechanical stimulus; and face morphogenesis. Predicted to be located in nucleus. Predicted to be part of transcription regulator complex. Orthologous to human SCX (scleraxis bHLH transcription factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 115.5), Muscle (RPKM 94.3) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q34

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (110056897..110059283)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (108176608..108178626)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (117519075..117521093)

Chromosome 7 - NC_086025.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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?

Wnt/beta-catenin decreased Mkx and Tnmd expressions without suppressing Scx expression in Scx-programmed tendon progenitors.
Title: Wnt/β-catenin signaling suppresses expressions of Scx, Mkx, and Tnmd in tendon-derived cells.
morphological change and SOX9/SCX expression of the cells at the supraspinatus tendon insertion drastically changed during endochondral ossification
Title: Three-dimensional ultrastructural analysis of development at the supraspinatus insertion by using focused ion beam/scanning electron microscope tomography in rats.
Scleraxis expression is induced by TGFbeta1 through a Smad-independent pathway in the cardiac myofibroblast
Title: TGFβ1 regulates Scleraxis expression in primary cardiac myofibroblasts by a Smad-independent mechanism.
Scx has a role in expression of lineage markers in tendon-derived stem cells and the effect of the resulting cell line in the promotion of tendon repair
Title: Scx-transduced tendon-derived stem cells (tdscs) promoted better tendon repair compared to mock-transduced cells in a rat patellar tendon window injury model.
The expression of scleraxis, a transcription factor necessary for tendon development, was upregulated in response to rotator cuff injury and repair.
Title: The effect of unloading on gene expression of healthy and injured rotator cuffs.
Data suggest that Sry (sex determining region Y) and Tcf21 (transcription factor 21) induce initial stages of embryonic Sertoli cell differentiation; Scx induces later stages. Sry>Tcf21>Scx cascade appears to promote subsequent sex differentiation.
Title: SRY induced TCF21 genome-wide targets and cascade of bHLH factors during Sertoli cell differentiation and male sex determination in rats.
scleraxis functions in a number of adult tissues and is involved in the regulation and maintenance of Sertoli cell function and differentiation.
Title: Role of the basic helix-loop-helix transcription factor, scleraxis, in the regulation of Sertoli cell function and differentiation.
These data support a novel and previously unknown role for scleraxis in the regulation of collagen gene expression in the heart, including in post-infarct scar formation.
Title: The basic helix-loop-helix transcription factor scleraxis regulates fibroblast collagen synthesis.

Submit: New GeneRIF Correction

General gene information

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Markers

Scx (e-PCR), detects polymorphism
- UniSTS:531313

Scx (e-PCR), detects polymorphism
- UniSTS:547305

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	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
contributes_to E-box binding	ISO Inferred from Sequence Orthology more info
enables E-box binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables bHLH transcription factor binding	ISO Inferred from Sequence Orthology more info
enables cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in BMP signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to BMP stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to mechanical stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to transforming growth factor beta stimulus	ISO Inferred from Sequence Orthology more info
involved_in chondrocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in collagen fibril organization	ISO Inferred from Sequence Orthology more info
involved_in deltoid tuberosity development	ISO Inferred from Sequence Orthology more info
involved_in developmental process	IBA Inferred from Biological aspect of Ancestor more info
involved_in embryonic skeletal system development	ISO Inferred from Sequence Orthology more info
involved_in endochondral ossification	ISO Inferred from Sequence Orthology more info
involved_in face morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in heart valve formation	ISO Inferred from Sequence Orthology more info
involved_in heart valve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in mesoderm formation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cartilage development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of collagen biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gastrulation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	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
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of cartilage development	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
involved_in sclerotome development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skeletal muscle cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in tendon cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in tendon development	ISO Inferred from Sequence Orthology more info
involved_in tendon formation	ISO Inferred from Sequence Orthology more info
involved_in tissue homeostasis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: basic helix-loop-helix transcription factor scleraxis

Names: scleraxis basic helix-loop-helix transcription factor

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_001130508.1 → NP_001123980.1 basic helix-loop-helix transcription factor scleraxis

See identical proteins and their annotated locations for NP_001123980.1

Status: PROVISIONAL

Source sequence(s)

CH473950

UniProtKB/TrEMBL

A6HS99, B5DFF0, G3V8X3

Conserved Domains (1) summary

cd18951
Location:76 → 143

bHLH_TS_scleraxis; basic helix-loop-helix (bHLH) domain found in scleraxis and similar proteins