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Q04887 (SOX9_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 112. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Transcription factor SOX-9
Gene names
Name:Sox9
Synonyms:Sox-9
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length507 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Plays an important role in the normal skeletal development. May regulate the expression of other genes involved in chondrogenesis by acting as a transcription factor for these genes By similarity.

Subcellular location

Nucleus Potential.

Sequence similarities

Contains 1 HMG box DNA-binding domain.

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   LigandDNA-binding
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processERK1 and ERK2 cascade

Inferred from direct assay PubMed 21512138. Source: UniProtKB

Sertoli cell development

Inferred from genetic interaction PubMed 19124014. Source: MGI

astrocyte fate commitment

Inferred from genetic interaction PubMed 19490914. Source: MGI

branching involved in ureteric bud morphogenesis

Inferred from expression pattern PubMed 8787755. Source: UniProtKB

cAMP-mediated signaling

Inferred from sequence or structural similarity. Source: UniProtKB

cartilage condensation

Inferred from mutant phenotype PubMed 10319868PubMed 12414734. Source: MGI

cell fate specification

Inferred from mutant phenotype PubMed 12842915. Source: MGI

cellular response to epidermal growth factor stimulus

Inferred from direct assay PubMed 21512138. Source: UniProtKB

cellular response to heparin

Inferred from direct assay PubMed 21512138. Source: UniProtKB

cellular response to interleukin-1

Inferred from electronic annotation. Source: Ensembl

cellular response to mechanical stimulus

Inferred from direct assay PubMed 21512138. Source: UniProtKB

cellular response to retinoic acid

Inferred from direct assay PubMed 19389355. Source: MGI

cellular response to transforming growth factor beta stimulus

Inferred from expression pattern PubMed 17525254. Source: UniProtKB

chondrocyte differentiation involved in endochondral bone morphogenesis

Inferred from sequence or structural similarity. Source: UniProtKB

chondrocyte hypertrophy

Inferred from mutant phenotype PubMed 21367821. Source: UniProtKB

chromatin remodeling

Inferred from sequence or structural similarity. Source: UniProtKB

cochlea morphogenesis

Inferred from mutant phenotype PubMed 20346939. Source: MGI

endocardial cushion morphogenesis

Inferred from mutant phenotype PubMed 11951052. Source: MGI

endocrine pancreas development

Inferred from mutant phenotype PubMed 18723011. Source: MGI

epidermal growth factor receptor signaling pathway

Inferred from direct assay PubMed 21512138. Source: UniProtKB

epithelial cell proliferation involved in prostatic bud elongation

Inferred from mutant phenotype PubMed 18325490. Source: MGI

epithelial to mesenchymal transition

Inferred from mutant phenotype PubMed 15096597. Source: MGI

extracellular matrix organization

Inferred from mutant phenotype PubMed 17350610. Source: MGI

hair follicle development

Inferred from mutant phenotype PubMed 16085486. Source: MGI

heart valve formation

Inferred from mutant phenotype PubMed 17350610. Source: MGI

intestinal epithelial structure maintenance

Inferred from mutant phenotype PubMed 17681175. Source: MGI

intrahepatic bile duct development

Inferred from mutant phenotype PubMed 19403103. Source: MGI

limb bud formation

Inferred from expression pattern PubMed 20940257. Source: UniProtKB

male germ-line sex determination

Inferred from mutant phenotype PubMed 11431689PubMed 16207837. Source: MGI

mammary gland development

Inferred from expression pattern PubMed 12420222. Source: UniProtKB

metanephric nephron tubule formation

Inferred from genetic interaction PubMed 21212101. Source: MGI

negative regulation of apoptotic process

Inferred from mutant phenotype PubMed 21367821. Source: UniProtKB

negative regulation of bone mineralization

Inferred from mutant phenotype PubMed 11371614. Source: MGI

negative regulation of canonical Wnt signaling pathway

Inferred from direct assay PubMed 17875931. Source: UniProtKB

negative regulation of chondrocyte differentiation

Inferred from mutant phenotype PubMed 11371614. Source: MGI

negative regulation of epithelial cell proliferation

Inferred from mutant phenotype PubMed 17681175. Source: MGI

negative regulation of immune system process

Inferred from mutant phenotype PubMed 20056916. Source: UniProtKB

negative regulation of myoblast differentiation

Inferred from direct assay PubMed 12782625. Source: MGI

negative regulation of photoreceptor cell differentiation

Inferred from genetic interaction PubMed 19490914. Source: MGI

negative regulation of transcription, DNA-templated

Inferred from mutant phenotype PubMed 21212101. Source: UniProtKB

neural crest cell development

Inferred from mutant phenotype PubMed 15691760. Source: MGI

notochord development

Inferred from expression pattern PubMed 9119111. Source: UniProtKB

nucleosome assembly

Inferred from sequence or structural similarity. Source: UniProtKB

oligodendrocyte differentiation

Inferred from mutant phenotype PubMed 17084361. Source: MGI

ossification

Inferred from expression pattern PubMed 9119111. Source: UniProtKB

otic vesicle formation

Inferred from mutant phenotype PubMed 18377888. Source: MGI

positive regulation of branching involved in ureteric bud morphogenesis

Inferred from mutant phenotype PubMed 21212101. Source: UniProtKB

positive regulation of cartilage development

Inferred from direct assay PubMed 19047045. Source: MGI

positive regulation of cell proliferation involved in heart morphogenesis

Inferred from mutant phenotype PubMed 17350610. Source: MGI

positive regulation of chondrocyte differentiation

Inferred from direct assay PubMed 20940257. Source: UniProtKB

positive regulation of epithelial cell differentiation

Inferred from mutant phenotype PubMed 17681175. Source: MGI

positive regulation of epithelial cell migration

Inferred from sequence or structural similarity PubMed 21512138. Source: UniProtKB

positive regulation of epithelial cell proliferation

Inferred from mutant phenotype PubMed 20103652. Source: UniProtKB

positive regulation of male gonad development

Inferred from sequence or structural similarity. Source: UniProtKB

positive regulation of mesenchymal cell proliferation

Inferred from mutant phenotype PubMed 17350610PubMed 20346939. Source: MGI

positive regulation of mesenchymal stem cell differentiation

Inferred from sequence or structural similarity. Source: UniProtKB

positive regulation of phosphatidylinositol 3-kinase signaling

Inferred from mutant phenotype PubMed 21367821. Source: UniProtKB

positive regulation of protein catabolic process

Inferred from direct assay PubMed 19047045. Source: MGI

positive regulation of protein phosphorylation

Inferred from mutant phenotype PubMed 21367821. Source: UniProtKB

protein kinase B signaling

Inferred from mutant phenotype PubMed 21367821. Source: UniProtKB

regulation of cell adhesion

Inferred from mutant phenotype PubMed 18377888. Source: MGI

regulation of cell cycle process

Inferred from sequence or structural similarity. Source: UniProtKB

regulation of cell proliferation involved in tissue homeostasis

Inferred from mutant phenotype PubMed 17698607. Source: MGI

renal vesicle induction

Inferred from mutant phenotype PubMed 21212101. Source: UniProtKB

retinal rod cell differentiation

Inferred from genetic interaction PubMed 19490914. Source: MGI

somatic stem cell maintenance

Inferred from mutant phenotype PubMed 20871603. Source: MGI

spermatogenesis

Inferred from genetic interaction PubMed 19124014. Source: MGI

ureter morphogenesis

Inferred from genetic interaction PubMed 21212101. Source: MGI

ureter urothelium development

Inferred from expression pattern PubMed 21512138. Source: UniProtKB

   Cellular_componentnuclear transcription factor complex

Inferred from direct assay PubMed 22344693. Source: MGI

   Molecular_functionRNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription

Inferred from direct assay PubMed 21367821. Source: UniProtKB

RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity

Inferred from direct assay PubMed 17525254. Source: UniProtKB

chromatin binding

Inferred from sequence or structural similarity. Source: UniProtKB

core promoter sequence-specific DNA binding

Inferred from sequence or structural similarity. Source: UniProtKB

enhancer sequence-specific DNA binding

Inferred from direct assay PubMed 17525254. Source: UniProtKB

protein heterodimerization activity

Inferred from direct assay PubMed 22344693. Source: MGI

protein kinase activity

Inferred from mutant phenotype PubMed 21367821. Source: UniProtKB

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 507507Transcription factor SOX-9
PRO_0000048741

Regions

DNA binding105 – 17369HMG box
Compositional bias339 – 41577Gln/Pro-rich
Compositional bias342 – 3465Poly-Pro

Experimental info

Sequence conflict621K → R in BAC34018. Ref.2

Sequences

Sequence LengthMass (Da)Tools
Q04887 [UniParc].

Last modified May 10, 2004. Version 2.
Checksum: 01FC3B54FF329BDA

FASTA50756,077
        10         20         30         40         50         60 
MNLLDPFMKM TDEQEKGLSG APSPTMSEDS AGSPCPSGSG SDTENTRPQE NTFPKGEPDL 

        70         80         90        100        110        120 
KKESEEDKFP VCIREAVSQV LKGYDWTLVP MPVRVNGSSK NKPHVKRPMN AFMVWAQAAR 

       130        140        150        160        170        180 
RKLADQYPHL HNAELSKTLG KLWRLLNESE KRPFVEEAER LRVQHKKDHP DYKYQPRRRK 

       190        200        210        220        230        240 
SVKNGQAEAE EATEQTHISP NAIFKALQAD SPHSSSGMSE VHSPGEHSGQ SQGPPTPPTT 

       250        260        270        280        290        300 
PKTDVQAGKV DLKREGRPLA EGGRQPPIDF RDVDIGELSS DVISNIETFD VNEFDQYLPP 

       310        320        330        340        350        360 
NGHPGVPATH GQVTYTGSYG ISSTAPTPAT AGHVWMSKQQ APPPPPQQPP QAPQAPQAPP 

       370        380        390        400        410        420 
QQQAPPQQPQ APQQQQAHTL TTLSSEPGQS QRTHIKTEQL SPSHYSEQQQ HSPQQISYSP 

       430        440        450        460        470        480 
FNLPHYSPSY PPITRSQYDY ADHQNSGSYY SHAAGQGSGL YSTFTYMNPA QRPMYTPIAD 

       490        500 
TSGVPSIPQT HSPQHWEQPV YTQLTRP 

« Hide

References

« Hide 'large scale' references
[1]"The gene expression of Sox9 in mouse genital ridges."
Lee H.-H.
Submitted (SEP-2001) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
Strain: 129.
[2]"The transcriptional landscape of the mammalian genome."
Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. expand/collapse author list , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: C57BL/6J.
Tissue: Hippocampus and Testis.
[3]"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
The MGC Project Team
Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Strain: FVB/N.
Tissue: Salivary gland.
[4]"Seven new members of the Sox gene family expressed during mouse development."
Wright E.M., Snopek B., Koopman P.
Nucleic Acids Res. 21:744-744(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 113-168.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF421878 mRNA. Translation: AAL16093.1.
AK030187 mRNA. Translation: BAC26830.1.
AK049986 mRNA. Translation: BAC34018.1.
BC004064 mRNA. Translation: AAH04064.1.
BC023796 mRNA. Translation: AAH23796.1.
BC023808 mRNA. Translation: AAH23808.1.
BC023953 mRNA. Translation: AAH23953.1.
BC024958 mRNA. Translation: AAH24958.1.
BC034264 mRNA. Translation: AAH34264.1.
Z18958 mRNA. Translation: CAA79483.1.
PIRS30243.
S52469.
RefSeqNP_035578.3. NM_011448.4.
UniGeneMm.286407.

3D structure databases

ProteinModelPortalQ04887.
SMRQ04887. Positions 103-174.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid203413. 6 interactions.
IntActQ04887. 1 interaction.

PTM databases

PhosphoSiteQ04887.

Proteomic databases

PRIDEQ04887.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000000579; ENSMUSP00000000579; ENSMUSG00000000567.
GeneID20682.
KEGGmmu:20682.
UCSCuc007med.2. mouse.

Organism-specific databases

CTD6662.
MGIMGI:98371. Sox9.

Phylogenomic databases

eggNOGNOG295709.
GeneTreeENSGT00740000115373.
HOVERGENHBG002061.
InParanoidQ04887.
KOK09270.
OMAPTQRPMY.
OrthoDBEOG7Q2N5K.
TreeFamTF351735.

Gene expression databases

ArrayExpressQ04887.
BgeeQ04887.
CleanExMM_SOX9.
GenevestigatorQ04887.

Family and domain databases

Gene3D1.10.30.10. 1 hit.
InterProIPR009071. HMG_box_dom.
IPR022151. Sox_N.
[Graphical view]
PfamPF00505. HMG_box. 1 hit.
PF12444. Sox_N. 1 hit.
[Graphical view]
SMARTSM00398. HMG. 1 hit.
[Graphical view]
SUPFAMSSF47095. SSF47095. 1 hit.
PROSITEPS50118. HMG_BOX_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio299193.
PROQ04887.
SOURCESearch...

Entry information

Entry nameSOX9_MOUSE
AccessionPrimary (citable) accession number: Q04887
Secondary accession number(s): Q8C7L2, Q91ZK2, Q99KQ0
Entry history
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: May 10, 2004
Last modified: February 19, 2014
This is version 112 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot