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Protein

Transcription factor SOX-9

Gene

Sox9

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

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).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi105 – 17369HMG boxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. beta-catenin binding Source: MGI
  2. chromatin binding Source: UniProtKB
  3. core promoter sequence-specific DNA binding Source: UniProtKB
  4. DNA binding Source: MGI
  5. enhancer binding Source: UniProtKB
  6. enhancer sequence-specific DNA binding Source: UniProtKB
  7. pre-mRNA intronic binding Source: MGI
  8. protein heterodimerization activity Source: MGI
  9. protein kinase A catalytic subunit binding Source: MGI
  10. protein kinase activity Source: UniProtKB
  11. RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: UniProtKB
  12. RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity Source: UniProtKB
  13. RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: MGI
  14. sequence-specific DNA binding Source: MGI
  15. sequence-specific DNA binding RNA polymerase II transcription factor activity Source: MGI
  16. sequence-specific DNA binding transcription factor activity Source: MGI
  17. transcription regulatory region DNA binding Source: MGI
  18. transcription regulatory region sequence-specific DNA binding Source: UniProtKB

GO - Biological processi

  1. astrocyte fate commitment Source: MGI
  2. branching involved in ureteric bud morphogenesis Source: UniProtKB
  3. bronchus cartilage development Source: MGI
  4. cAMP-mediated signaling Source: UniProtKB
  5. cartilage condensation Source: MGI
  6. cartilage development Source: MGI
  7. cell differentiation Source: MGI
  8. cell fate commitment Source: MGI
  9. cell fate specification Source: MGI
  10. cellular response to epidermal growth factor stimulus Source: UniProtKB
  11. cellular response to heparin Source: UniProtKB
  12. cellular response to interleukin-1 Source: Ensembl
  13. cellular response to mechanical stimulus Source: UniProtKB
  14. cellular response to retinoic acid Source: MGI
  15. cellular response to transforming growth factor beta stimulus Source: UniProtKB
  16. central nervous system development Source: UniProtKB
  17. chondrocyte development Source: MGI
  18. chondrocyte differentiation Source: UniProtKB
  19. chondrocyte differentiation involved in endochondral bone morphogenesis Source: UniProtKB
  20. chondrocyte hypertrophy Source: UniProtKB
  21. chromatin remodeling Source: UniProtKB
  22. cochlea morphogenesis Source: MGI
  23. cytoskeleton organization Source: MGI
  24. endocardial cushion morphogenesis Source: MGI
  25. endochondral bone morphogenesis Source: MGI
  26. endocrine pancreas development Source: MGI
  27. epidermal growth factor receptor signaling pathway Source: UniProtKB
  28. epithelial cell proliferation involved in prostatic bud elongation Source: MGI
  29. epithelial to mesenchymal transition Source: MGI
  30. epithelial tube branching involved in lung morphogenesis Source: MGI
  31. ERK1 and ERK2 cascade Source: UniProtKB
  32. extracellular matrix organization Source: MGI
  33. hair follicle development Source: MGI
  34. Harderian gland development Source: MGI
  35. heart development Source: MGI
  36. heart valve development Source: UniProtKB
  37. heart valve formation Source: MGI
  38. heart valve morphogenesis Source: MGI
  39. homeostasis of number of cells within a tissue Source: MGI
  40. intestinal epithelial structure maintenance Source: MGI
  41. intrahepatic bile duct development Source: MGI
  42. lacrimal gland development Source: MGI
  43. limb bud formation Source: UniProtKB
  44. lung epithelial cell differentiation Source: MGI
  45. lung smooth muscle development Source: MGI
  46. male germ-line sex determination Source: MGI
  47. male gonad development Source: UniProtKB
  48. male sex determination Source: MGI
  49. mammary gland development Source: UniProtKB
  50. metanephric nephron tubule formation Source: MGI
  51. metanephric tubule development Source: UniProtKB
  52. morphogenesis of a branching epithelium Source: MGI
  53. negative regulation of apoptotic process Source: UniProtKB
  54. negative regulation of biomineral tissue development Source: UniProtKB
  55. negative regulation of bone mineralization Source: MGI
  56. negative regulation of canonical Wnt signaling pathway Source: UniProtKB
  57. negative regulation of cell proliferation Source: MGI
  58. negative regulation of chondrocyte differentiation Source: MGI
  59. negative regulation of epithelial cell differentiation Source: MGI
  60. negative regulation of epithelial cell proliferation Source: MGI
  61. negative regulation of gene expression Source: MGI
  62. negative regulation of immune system process Source: UniProtKB
  63. negative regulation of mesenchymal cell apoptotic process Source: MGI
  64. negative regulation of myoblast differentiation Source: MGI
  65. negative regulation of ossification Source: UniProtKB
  66. negative regulation of photoreceptor cell differentiation Source: MGI
  67. negative regulation of transcription, DNA-templated Source: UniProtKB
  68. negative regulation of transcription from RNA polymerase II promoter Source: MGI
  69. neural crest cell development Source: MGI
  70. notochord development Source: UniProtKB
  71. nucleosome assembly Source: UniProtKB
  72. oligodendrocyte differentiation Source: MGI
  73. ossification Source: UniProtKB
  74. otic vesicle development Source: UniProtKB
  75. otic vesicle formation Source: MGI
  76. positive regulation of branching involved in ureteric bud morphogenesis Source: UniProtKB
  77. positive regulation of cartilage development Source: MGI
  78. positive regulation of cell proliferation Source: MGI
  79. positive regulation of cell proliferation involved in heart morphogenesis Source: MGI
  80. positive regulation of chondrocyte differentiation Source: UniProtKB
  81. positive regulation of epithelial cell differentiation Source: MGI
  82. positive regulation of epithelial cell migration Source: UniProtKB
  83. positive regulation of epithelial cell proliferation Source: UniProtKB
  84. positive regulation of extracellular matrix assembly Source: MGI
  85. positive regulation of gene expression Source: MGI
  86. positive regulation of kidney development Source: UniProtKB
  87. positive regulation of male gonad development Source: UniProtKB
  88. positive regulation of mesenchymal cell proliferation Source: MGI
  89. positive regulation of mesenchymal stem cell differentiation Source: UniProtKB
  90. positive regulation of phosphatidylinositol 3-kinase signaling Source: UniProtKB
  91. positive regulation of protein catabolic process Source: MGI
  92. positive regulation of protein phosphorylation Source: UniProtKB
  93. positive regulation of transcription, DNA-templated Source: UniProtKB
  94. positive regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  95. prostate gland development Source: UniProtKB
  96. prostate gland morphogenesis Source: MGI
  97. protein complex assembly Source: UniProtKB
  98. protein kinase B signaling Source: UniProtKB
  99. protein localization to nucleus Source: MGI
  100. protein phosphorylation Source: GOC
  101. regulation of branching involved in lung morphogenesis Source: MGI
  102. regulation of cell adhesion Source: MGI
  103. regulation of cell cycle process Source: UniProtKB
  104. regulation of cell differentiation Source: MGI
  105. regulation of cell proliferation Source: MGI
  106. regulation of cell proliferation involved in tissue homeostasis Source: MGI
  107. regulation of epithelial cell proliferation involved in lung morphogenesis Source: MGI
  108. regulation of transcription, DNA-templated Source: MGI
  109. regulation of transcription from RNA polymerase II promoter Source: MGI
  110. renal vesicle induction Source: UniProtKB
  111. retina development in camera-type eye Source: MGI
  112. retinal rod cell differentiation Source: MGI
  113. Sertoli cell development Source: MGI
  114. Sertoli cell differentiation Source: MGI
  115. signal transduction Source: UniProtKB
  116. single organismal cell-cell adhesion Source: MGI
  117. skeletal system development Source: UniProtKB
  118. somatic stem cell maintenance Source: MGI
  119. spermatogenesis Source: MGI
  120. tissue homeostasis Source: UniProtKB
  121. trachea cartilage development Source: MGI
  122. transcription from RNA polymerase II promoter Source: MGI
  123. ureter development Source: MGI
  124. ureter morphogenesis Source: MGI
  125. ureter smooth muscle cell differentiation Source: MGI
  126. ureter urothelium development Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription factor SOX-9
Gene namesi
Name:Sox9
Synonyms:Sox-9
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 11

Organism-specific databases

MGIiMGI:98371. Sox9.

Subcellular locationi

  1. Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

  1. nuclear transcription factor complex Source: MGI
  2. nucleoplasm Source: MGI
  3. nucleus Source: UniProtKB
  4. protein complex Source: UniProtKB
  5. transcription factor complex Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 507507Transcription factor SOX-9PRO_0000048741Add
BLAST

Proteomic databases

MaxQBiQ04887.
PRIDEiQ04887.

PTM databases

PhosphoSiteiQ04887.

Expressioni

Gene expression databases

BgeeiQ04887.
CleanExiMM_SOX9.
ExpressionAtlasiQ04887. baseline and differential.
GenevestigatoriQ04887.

Interactioni

Protein-protein interaction databases

BioGridi203413. 7 interactions.
IntActiQ04887. 1 interaction.

Structurei

3D structure databases

ProteinModelPortaliQ04887.
SMRiQ04887. Positions 103-174.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi339 – 41577Gln/Pro-richAdd
BLAST
Compositional biasi342 – 3465Poly-Pro

Sequence similaritiesi

Contains 1 HMG box DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiNOG295709.
GeneTreeiENSGT00760000118988.
HOVERGENiHBG002061.
InParanoidiQ04887.
KOiK18435.
OMAiSTFTYMS.
OrthoDBiEOG7Q2N5K.
TreeFamiTF351735.

Family and domain databases

Gene3Di1.10.30.10. 1 hit.
InterProiIPR009071. HMG_box_dom.
IPR029548. SOX-9.
IPR022151. Sox_N.
[Graphical view]
PANTHERiPTHR10270:SF212. PTHR10270:SF212. 1 hit.
PfamiPF00505. HMG_box. 1 hit.
PF12444. Sox_N. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 1 hit.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 1 hit.
PROSITEiPS50118. HMG_BOX_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q04887-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNLLDPFMKM TDEQEKGLSG APSPTMSEDS AGSPCPSGSG SDTENTRPQE
60 70 80 90 100
NTFPKGEPDL KKESEEDKFP VCIREAVSQV LKGYDWTLVP MPVRVNGSSK
110 120 130 140 150
NKPHVKRPMN AFMVWAQAAR RKLADQYPHL HNAELSKTLG KLWRLLNESE
160 170 180 190 200
KRPFVEEAER LRVQHKKDHP DYKYQPRRRK SVKNGQAEAE EATEQTHISP
210 220 230 240 250
NAIFKALQAD SPHSSSGMSE VHSPGEHSGQ SQGPPTPPTT PKTDVQAGKV
260 270 280 290 300
DLKREGRPLA EGGRQPPIDF RDVDIGELSS DVISNIETFD VNEFDQYLPP
310 320 330 340 350
NGHPGVPATH GQVTYTGSYG ISSTAPTPAT AGHVWMSKQQ APPPPPQQPP
360 370 380 390 400
QAPQAPQAPP QQQAPPQQPQ APQQQQAHTL TTLSSEPGQS QRTHIKTEQL
410 420 430 440 450
SPSHYSEQQQ HSPQQISYSP FNLPHYSPSY PPITRSQYDY ADHQNSGSYY
460 470 480 490 500
SHAAGQGSGL YSTFTYMNPA QRPMYTPIAD TSGVPSIPQT HSPQHWEQPV

YTQLTRP
Length:507
Mass (Da):56,077
Last modified:May 10, 2004 - v2
Checksum:i01FC3B54FF329BDA
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti62 – 621K → R in BAC34018 (PubMed:16141072).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CCDSiCCDS25595.1.
PIRiS30243.
S52469.
RefSeqiNP_035578.3. NM_011448.4.
UniGeneiMm.286407.

Genome annotation databases

EnsembliENSMUST00000000579; ENSMUSP00000000579; ENSMUSG00000000567.
GeneIDi20682.
KEGGimmu:20682.
UCSCiuc007med.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CCDSiCCDS25595.1.
PIRiS30243.
S52469.
RefSeqiNP_035578.3. NM_011448.4.
UniGeneiMm.286407.

3D structure databases

ProteinModelPortaliQ04887.
SMRiQ04887. Positions 103-174.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi203413. 7 interactions.
IntActiQ04887. 1 interaction.

PTM databases

PhosphoSiteiQ04887.

Proteomic databases

MaxQBiQ04887.
PRIDEiQ04887.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000000579; ENSMUSP00000000579; ENSMUSG00000000567.
GeneIDi20682.
KEGGimmu:20682.
UCSCiuc007med.2. mouse.

Organism-specific databases

CTDi6662.
MGIiMGI:98371. Sox9.

Phylogenomic databases

eggNOGiNOG295709.
GeneTreeiENSGT00760000118988.
HOVERGENiHBG002061.
InParanoidiQ04887.
KOiK18435.
OMAiSTFTYMS.
OrthoDBiEOG7Q2N5K.
TreeFamiTF351735.

Miscellaneous databases

NextBioi299193.
PROiQ04887.
SOURCEiSearch...

Gene expression databases

BgeeiQ04887.
CleanExiMM_SOX9.
ExpressionAtlasiQ04887. baseline and differential.
GenevestigatoriQ04887.

Family and domain databases

Gene3Di1.10.30.10. 1 hit.
InterProiIPR009071. HMG_box_dom.
IPR029548. SOX-9.
IPR022151. Sox_N.
[Graphical view]
PANTHERiPTHR10270:SF212. PTHR10270:SF212. 1 hit.
PfamiPF00505. HMG_box. 1 hit.
PF12444. Sox_N. 1 hit.
[Graphical view]
SMARTiSM00398. HMG. 1 hit.
[Graphical view]
SUPFAMiSSF47095. SSF47095. 1 hit.
PROSITEiPS50118. HMG_BOX_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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.

Entry informationi

Entry nameiSOX9_MOUSE
AccessioniPrimary (citable) accession number: Q04887
Secondary accession number(s): Q8C7L2, Q91ZK2, Q99KQ0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: May 10, 2004
Last modified: April 1, 2015
This is version 123 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.