SOX5 SRY-box 5 [Gallus gallus (chicken)] - Gene

Summary

Symbol: SOX5provided by CGNC
Full Name: SRY-box 5provided by CGNC
Primary source: CGNC:9966
See related: Ensembl:ENSGALG00010014120
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Gallus gallus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes; Phasianidae; Phasianinae; Gallus
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 1

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
106	current	bGalGal1.mat.broiler.GRCg7b (GCF_016699485.2)	1	NC_052532.1 (65588747..66230345)
106	current	bGalGal1.pat.whiteleghornlayer.GRCg7w (GCF_016700215.2)	1	NC_052573.1 (65909904..66570012)

Chromosome 1 - NC_052532.1 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Sox5 acts as a Wnt pathway modulator that contributes to sharpen the dorsal gradient of Wnt/betacatenin activity
Title: Sox5 controls dorsal progenitor and interneuron specification in the spinal cord.
model whereby Sox and Nfi proteins bind to conserved Matn1 proximal elements and functionally interact with each other to finely tune gene expression in specific zones of the cartilage growth plate
Title: Evolutionarily conserved, growth plate zone-specific regulation of the matrilin-1 promoter: L-Sox5/Sox6 and Nfi factors bound near TATA finely tune activation by Sox9.
SOX5 regulates the timing of cell cycle exit by opposing WNT-beta-catenin activity on cell cycle progression.
Title: SOX5 controls cell cycle progression in neural progenitors by interfering with the WNT-beta-catenin pathway.
Pea-comb phenotype is caused by a massive amplification of a sequence located in intron 1 of the SOX5 gene.
Title: Copy number variation in intron 1 of SOX5 causes the Pea-comb phenotype in chickens.
Sox5 has a role in neural cell fate determination
Title: Dynamic Sox5 protein expression during cranial ganglia development.
Misexpression of LSox5 in the cephalic neural tube activated RhoB expression throughout the dorsoventral axis
Title: LSox5 regulates RhoB expression in the neural tube and promotes generation of the neural crest.

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General gene information

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Gene Ontology Provided by RefSeq

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

Process	Evidence Code	Pubs
involved_in cell fate commitment	IEA Inferred from Electronic Annotation more info	PubMed
involved_in positive regulation of chondrocyte differentiation	IEA Inferred from Electronic Annotation more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info	PubMed

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info	PubMed

General protein information

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Preferred Names: transcription factor SOX-5

Names: SRY (sex determining region Y)-box 5; sex determining region Y-box 5; transcription factor LSox5-I

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_001004385.3 → NP_001004385.1 transcription factor SOX-5 isoform 2

See identical proteins and their annotated locations for NP_001004385.1

Status: VALIDATED

Source sequence(s)

JAENSK010000012

UniProtKB/TrEMBL

A0A8V0YUM9, Q6A2A8

Related

ENSGALP00010019969.1, ENSGALT00010033982.1

Conserved Domains (1) summary

cd01388
Location:529 → 600

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 ...
NM_001397651.2 → NP_001384580.1 transcription factor SOX-5 isoform 1

Status: VALIDATED

Source sequence(s)

JAENSK010000012

UniProtKB/TrEMBL

Q6A2A9

Conserved Domains (1) summary

cd01388
Location:564 → 635

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 ...
NM_001397975.1 → NP_001384904.1 transcription factor SOX-5 isoform 3

Status: VALIDATED

Source sequence(s)

JAENSK010000012

Related

ENSGALP00010019974.1, ENSGALT00010033987.1
NM_001397977.1 → NP_001384906.1 transcription factor SOX-5 isoform 4

Status: VALIDATED

Source sequence(s)

JAENSK010000012

RefSeqs of Annotated Genomes: Gallus gallus Annotation Release 106 details...

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

Reference bGalGal1.mat.broiler.GRCg7b Primary Assembly

Genomic

NC_052532.1 Reference bGalGal1.mat.broiler.GRCg7b Primary Assembly

Range

65588747..66230345

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_046939364.1 → XP_046795320.1 transcription factor SOX-5 isoform X5
XM_046939363.1 → XP_046795319.1 transcription factor SOX-5 isoform X5
XM_040697228.2 → XP_040553162.1 transcription factor SOX-5 isoform X5

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:570 → 641

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 ...
XM_040697234.2 → XP_040553168.1 transcription factor SOX-5 isoform X5

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:570 → 641

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 ...
XM_040697239.2 → XP_040553173.1 transcription factor SOX-5 isoform X5

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:570 → 641

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 ...
XM_040697231.2 → XP_040553165.1 transcription factor SOX-5 isoform X5

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:570 → 641

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 ...
XM_046939367.1 → XP_046795323.1 transcription factor SOX-5 isoform X10
XM_040697217.2 → XP_040553151.1 transcription factor SOX-5 isoform X1

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:583 → 654

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 ...
XM_040697221.2 → XP_040553155.1 transcription factor SOX-5 isoform X3

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:574 → 645

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 ...
XM_040697220.2 → XP_040553154.1 transcription factor SOX-5 isoform X2

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:582 → 653

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 ...
XM_040697226.2 → XP_040553160.1 transcription factor SOX-5 isoform X4

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:573 → 644

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 ...
XM_015290191.4 → XP_015145677.1 transcription factor SOX-5 isoform X6

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:565 → 636

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 ...
XM_015290209.4 → XP_015145695.1 transcription factor SOX-5 isoform X7

UniProtKB/TrEMBL

A0A8V0YGI4

Conserved Domains (1) summary

cd01388
Location:555 → 626

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 ...
XM_015290224.4 → XP_015145710.1 transcription factor SOX-5 isoform X11

UniProtKB/TrEMBL

A0A8V0YML5

Conserved Domains (1) summary

cd01388
Location:536 → 607

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 ...
XM_046939369.1 → XP_046795325.1 transcription factor SOX-5 isoform X12

Related

ENSGALP00010019968.1, ENSGALT00010033977.1
XM_040697260.2 → XP_040553194.1 transcription factor SOX-5 isoform X9

UniProtKB/TrEMBL

A0A8V0YUM9

Conserved Domains (1) summary

cd01388
Location:548 → 619

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 ...
XM_040697263.2 → XP_040553197.1 transcription factor SOX-5 isoform X13

UniProtKB/TrEMBL

A0A8V0YUM9

Conserved Domains (1) summary

cd01388
Location:521 → 592

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 ...
XM_015290226.4 → XP_015145712.1 transcription factor SOX-5 isoform X14

UniProtKB/TrEMBL

A0A8V0YUM9

Conserved Domains (1) summary

cd01388
Location:520 → 591

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 ...
XM_046939366.1 → XP_046795322.1 transcription factor SOX-5 isoform X8
XM_040697270.1 → XP_040553204.1 transcription factor SOX-5 isoform X15

UniProtKB/TrEMBL

A0A8V0YUM9

Conserved Domains (1) summary

cd01388
Location:486 → 557

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 ...
XM_040697271.2 → XP_040553205.1 transcription factor SOX-5 isoform X15

UniProtKB/TrEMBL

A0A8V0YUM9

Conserved Domains (1) summary

cd01388
Location:486 → 557

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 ...
XM_040697276.2 → XP_040553210.1 transcription factor SOX-5 isoform X16

UniProtKB/TrEMBL

A0A8V0YUM9

Conserved Domains (1) summary

cd01388
Location:404 → 475

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 ...