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Sox17 SRY box 17 [ Rattus norvegicus (Norway rat) ]

Gene ID: 312936, updated on 18-Apr-2019

Summary

Official Symbol
Sox17provided by RGD
Official Full Name
SRY box 17provided by RGD
Primary source
RGD:1305371
See related
Ensembl:ENSRNOG00000027357
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
Expression
Biased expression in Lung (RPKM 81.0), Uterus (RPKM 51.2) and 8 other tissues See more
Orthologs

Genomic context

See Sox17 in Genome Data Viewer
Location:
5q12
Exon count:
5
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (14890318..14895907)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 5 NC_005104.3 (19675563..19681084)

Chromosome 5 - NC_005104.4Genomic Context describing neighboring genes Neighboring gene mitochondrial ribosomal protein L15 Neighboring gene uncharacterized LOC102552817 Neighboring gene small ubiquitin-like modifier 4 Neighboring gene RP1, axonemal microtubule associated

Genomic regions, transcripts, and products

Expression

  • 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

Pathways from BioSystems

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
DNA-binding transcription activator activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA-binding transcription activator activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
PubMed 
DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
PubMed 
DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA-binding transcription factor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
PubMed 
beta-catenin binding IEA
Inferred from Electronic Annotation
more info
 
beta-catenin binding ISO
Inferred from Sequence Orthology
more info
PubMed 
molecular_function ND
No biological Data available
more info
 
protein heterodimerization activity IEA
Inferred from Electronic Annotation
more info
 
protein heterodimerization activity ISO
Inferred from Sequence Orthology
more info
PubMed 
sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 
sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
transcription coactivator activity IEA
Inferred from Electronic Annotation
more info
 
transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
PubMed 
transcription factor binding IEA
Inferred from Electronic Annotation
more info
 
transcription factor binding ISO
Inferred from Sequence Orthology
more info
PubMed 
transcription regulatory region DNA binding IEA
Inferred from Electronic Annotation
more info
 
transcription regulatory region DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
Process Evidence Code Pubs
angiogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
angiogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
biological_process ND
No biological Data available
more info
 
canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
canonical Wnt signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
cardiac cell fate determination IEA
Inferred from Electronic Annotation
more info
 
cardiac cell fate determination ISO
Inferred from Sequence Orthology
more info
PubMed 
cardiogenic plate morphogenesis IEA
Inferred from Electronic Annotation
more info
 
cardiogenic plate morphogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell migration involved in gastrulation IEA
Inferred from Electronic Annotation
more info
 
cell migration involved in gastrulation ISO
Inferred from Sequence Orthology
more info
PubMed 
cellular response to leukemia inhibitory factor IEA
Inferred from Electronic Annotation
more info
 
cellular response to leukemia inhibitory factor ISO
Inferred from Sequence Orthology
more info
PubMed 
common bile duct development IEA
Inferred from Electronic Annotation
more info
 
common bile duct development ISO
Inferred from Sequence Orthology
more info
PubMed 
embryonic foregut morphogenesis IEA
Inferred from Electronic Annotation
more info
 
embryonic foregut morphogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
embryonic heart tube development ISO
Inferred from Sequence Orthology
more info
PubMed 
embryonic heart tube morphogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
embryonic organ development ISO
Inferred from Sequence Orthology
more info
PubMed 
endocardial cell differentiation IEA
Inferred from Electronic Annotation
more info
 
endocardial cell differentiation ISO
Inferred from Sequence Orthology
more info
PubMed 
endocardium formation IEA
Inferred from Electronic Annotation
more info
 
endocardium formation ISO
Inferred from Sequence Orthology
more info
PubMed 
endoderm development ISO
Inferred from Sequence Orthology
more info
PubMed 
endoderm formation ISO
Inferred from Sequence Orthology
more info
PubMed 
endodermal cell fate determination IEA
Inferred from Electronic Annotation
more info
 
endodermal cell fate determination ISO
Inferred from Sequence Orthology
more info
PubMed 
endodermal digestive tract morphogenesis IEA
Inferred from Electronic Annotation
more info
 
endodermal digestive tract morphogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
gall bladder development IEA
Inferred from Electronic Annotation
more info
 
gall bladder development ISO
Inferred from Sequence Orthology
more info
PubMed 
gastrulation ISO
Inferred from Sequence Orthology
more info
PubMed 
heart looping IEA
Inferred from Electronic Annotation
more info
 
heart looping ISO
Inferred from Sequence Orthology
more info
PubMed 
inner cell mass cellular morphogenesis IEA
Inferred from Electronic Annotation
more info
 
inner cell mass cellular morphogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
mRNA transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
mRNA transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of Wnt signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of Wnt signaling pathway involved in heart development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of Wnt signaling pathway involved in heart development ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
negative regulation of canonical Wnt signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of cell growth IEA
Inferred from Electronic Annotation
more info
 
negative regulation of cell growth ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of mesodermal cell fate specification IEA
Inferred from Electronic Annotation
more info
 
negative regulation of mesodermal cell fate specification ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
PubMed 
outflow tract morphogenesis IEA
Inferred from Electronic Annotation
more info
 
outflow tract morphogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of cell differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell differentiation ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of protein catabolic process IEA
Inferred from Electronic Annotation
more info
 
positive regulation of protein catabolic process ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of skeletal muscle tissue development IEA
Inferred from Electronic Annotation
more info
 
positive regulation of skeletal muscle tissue development ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
PubMed 
protein destabilization IEA
Inferred from Electronic Annotation
more info
 
protein destabilization ISO
Inferred from Sequence Orthology
more info
PubMed 
protein stabilization IEA
Inferred from Electronic Annotation
more info
 
protein stabilization ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of cardiac cell fate specification IEA
Inferred from Electronic Annotation
more info
 
regulation of cardiac cell fate specification ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of cell differentiation ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of embryonic development ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of mesodermal cell fate specification ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of stem cell division IEA
Inferred from Electronic Annotation
more info
 
regulation of stem cell division ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of stem cell proliferation IEA
Inferred from Electronic Annotation
more info
 
regulation of stem cell proliferation ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of transcription from RNA polymerase II promoter involved in definitive endodermal cell fate specification IEA
Inferred from Electronic Annotation
more info
 
regulation of transcription from RNA polymerase II promoter involved in definitive endodermal cell fate specification ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of transcription, DNA-templated IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
PubMed 
renal system development IEA
Inferred from Electronic Annotation
more info
 
renal system development ISO
Inferred from Sequence Orthology
more info
PubMed 
rostrocaudal neural tube patterning IEA
Inferred from Electronic Annotation
more info
 
rostrocaudal neural tube patterning ISO
Inferred from Sequence Orthology
more info
PubMed 
signal transduction involved in regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
signal transduction involved in regulation of gene expression ISO
Inferred from Sequence Orthology
more info
PubMed 
spermatogenesis IEA
Inferred from Electronic Annotation
more info
 
spermatogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
stem cell differentiation ISO
Inferred from Sequence Orthology
more info
PubMed 
stem cell fate specification IEA
Inferred from Electronic Annotation
more info
 
stem cell fate specification ISO
Inferred from Sequence Orthology
more info
PubMed 
vasculogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
vasculogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
Component Evidence Code Pubs
cellular_component ND
No biological Data available
more info
 
nuclear transcription factor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear transcription factor complex ISO
Inferred from Sequence Orthology
more info
PubMed 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
PubMed 
transcription factor complex ISO
Inferred from Sequence Orthology
more info
PubMed 

General protein information

Preferred Names
transcription factor SOX-17
Names
SRY (sex determining region Y)-box 17
SRY-box containing gene 17

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001107902.1NP_001101372.1  transcription factor SOX-17

    See identical proteins and their annotated locations for NP_001101372.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473984
    UniProtKB/TrEMBL
    G3V923
    Related
    ENSRNOP00000033962.4, ENSRNOT00000033116.4
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005104.4 Reference Rnor_6.0 Primary Assembly

    Range
    14890318..14895907
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008763538.2XP_008761760.1  transcription factor SOX-17 isoform X1

    See identical proteins and their annotated locations for XP_008761760.1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain
  2. XM_006237809.3XP_006237871.1  transcription factor SOX-17 isoform X1

    See identical proteins and their annotated locations for XP_006237871.1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain
  3. XM_017593325.1XP_017448814.1  transcription factor SOX-17 isoform X1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain
  4. XM_017593324.1XP_017448813.1  transcription factor SOX-17 isoform X1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain
  5. XM_017593326.1XP_017448815.1  transcription factor SOX-17 isoform X1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain
  6. XM_017593327.1XP_017448816.1  transcription factor SOX-17 isoform X1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain
  7. XM_008763537.2XP_008761759.1  transcription factor SOX-17 isoform X1

    See identical proteins and their annotated locations for XP_008761759.1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain
  8. XM_017593323.1XP_017448812.1  transcription factor SOX-17 isoform X1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain
  9. XM_006237812.3XP_006237874.1  transcription factor SOX-17 isoform X1

    See identical proteins and their annotated locations for XP_006237874.1

    UniProtKB/TrEMBL
    G3V923
    Conserved Domains (2) summary
    cd01388
    Location:67138
    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 ...
    pfam12067
    Location:202421
    Sox_C_TAD; Sox C-terminal transactivation domain

Alternate Rn_Celera

Genomic

  1. AC_000073.1 Alternate Rn_Celera

    Range
    14398084..14403591
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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