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Aliases for SOBP Gene

Aliases for SOBP Gene

  • Sine Oculis Binding Protein Homolog 2 3 5
  • Jackson Circler Protein 1 3 4
  • JXC1 3 4
  • Sine Oculis Binding Protein Homolog (Drosophila) 2
  • Sine Oculis-Binding Protein Homolog 3
  • MRAMS 3

External Ids for SOBP Gene

Previous GeneCards Identifiers for SOBP Gene

  • GC06P107920
  • GC06P107811
  • GC06P105382

Summaries for SOBP Gene

Entrez Gene Summary for SOBP Gene

  • The protein encoded by this gene is a nuclear zinc finger protein that is involved in development of the cochlea. Defects in this gene have also been linked to intellectual disability. [provided by RefSeq, Mar 2011]

GeneCards Summary for SOBP Gene

SOBP (Sine Oculis Binding Protein Homolog) is a Protein Coding gene. Diseases associated with SOBP include Mental Retardation, Anterior Maxillary Protrusion, And Strabismus and Postcholecystectomy Syndrome. GO annotations related to this gene include SUMO polymer binding.

UniProtKB/Swiss-Prot for SOBP Gene

  • Implicated in development of the cochlea.

Gene Wiki entry for SOBP Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SOBP Gene

Genomics for SOBP Gene

Regulatory Elements for SOBP Gene

Enhancers for SOBP Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
- Elite enhancer/Elite enhancer-gene association

Enhancers around SOBP on UCSC Golden Path with GeneCards custom track

Promoters for SOBP Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SOBP on UCSC Golden Path with GeneCards custom track

Genomic Location for SOBP Gene

Chromosome:
6
Start:
107,489,958 bp from pter
End:
107,661,309 bp from pter
Size:
171,352 bases
Orientation:
Plus strand

Genomic View for SOBP Gene

Genes around SOBP on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SOBP Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SOBP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SOBP Gene

Proteins for SOBP Gene

  • Protein details for SOBP Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A7XYQ1-SOBP_HUMAN
    Recommended name:
    Sine oculis-binding protein homolog
    Protein Accession:
    A7XYQ1
    Secondary Accessions:
    • B0QZ12
    • Q5BJD4
    • Q8N2B2

    Protein attributes for SOBP Gene

    Size:
    873 amino acids
    Molecular mass:
    92658 Da
    Quaternary structure:
    • Interacts (via SIM domains) with SUMO1 and SUMO2.
    SequenceCaution:
    • Sequence=AAH91526.2; Type=Miscellaneous discrepancy; Note=Intron retention.; Evidence={ECO:0000305}; Sequence=BAC03537.1; Type=Miscellaneous discrepancy; Note=Intron retention.; Evidence={ECO:0000305};

neXtProt entry for SOBP Gene

Post-translational modifications for SOBP Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SOBP Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SOBP Gene

Domains & Families for SOBP Gene

Protein Domains for SOBP Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SOBP Gene

Graphical View of Domain Structure for InterPro Entry

A7XYQ1

UniProtKB/Swiss-Prot:

SOBP_HUMAN :
  • Belongs to the SOBP family.
  • Contains 2 FCS-type zinc fingers.
Family:
  • Belongs to the SOBP family.
Similarity:
  • Contains 2 FCS-type zinc fingers.
genes like me logo Genes that share domains with SOBP: view

No data available for Gene Families for SOBP Gene

Function for SOBP Gene

Molecular function for SOBP Gene

UniProtKB/Swiss-Prot Function:
Implicated in development of the cochlea.

Gene Ontology (GO) - Molecular Function for SOBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0032184 SUMO polymer binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with SOBP: view
genes like me logo Genes that share phenotypes with SOBP: view

Human Phenotype Ontology for SOBP Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targets and HOMER Transcription for SOBP Gene

Localization for SOBP Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SOBP Gene COMPARTMENTS Subcellular localization image for SOBP gene
Compartment Confidence
nucleus 4
cytosol 1
extracellular 1
mitochondrion 1
peroxisome 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for SOBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with SOBP: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for SOBP Gene

Pathways & Interactions for SOBP Gene

SuperPathways for SOBP Gene

No Data Available

Gene Ontology (GO) - Biological Process for SOBP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007605 sensory perception of sound IEA --
GO:0007626 locomotory behavior IEA --
GO:0042472 inner ear morphogenesis IEA --
GO:0050890 cognition IMP 21035105
GO:0090102 cochlea development IEA --
genes like me logo Genes that share ontologies with SOBP: view

No data available for Pathways by source and SIGNOR curated interactions for SOBP Gene

Drugs & Compounds for SOBP Gene

No Compound Related Data Available

Transcripts for SOBP Gene

Unigene Clusters for SOBP Gene

Sine oculis binding protein homolog (Drosophila):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SOBP Gene

No ASD Table

Relevant External Links for SOBP Gene

GeneLoc Exon Structure for
SOBP
ECgene alternative splicing isoforms for
SOBP

Expression for SOBP Gene

mRNA expression in normal human tissues for SOBP Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SOBP Gene

This gene is overexpressed in Fetal Brain (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SOBP Gene



Protein tissue co-expression partners for SOBP Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SOBP Gene:

SOBP

SOURCE GeneReport for Unigene cluster for SOBP Gene:

Hs.445244
genes like me logo Genes that share expression patterns with SOBP: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SOBP Gene

Orthologs for SOBP Gene

This gene was present in the common ancestor of animals.

Orthologs for SOBP Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SOBP 34
  • 94.67 (n)
  • 97.81 (a)
SOBP 35
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SOBP 34
  • 94.89 (n)
  • 96.38 (a)
SOBP 35
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sobp 34
  • 90.93 (n)
  • 94.21 (a)
Sobp 16
Sobp 35
  • 95 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SOBP 34
  • 97.79 (n)
  • 97.03 (a)
SOBP 35
  • 97 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sobp 34
  • 91.17 (n)
  • 94.33 (a)
oppossum
(Monodelphis domestica)
Mammalia SOBP 35
  • 82 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 79 (a)
OneToMany
-- 35
  • 92 (a)
OneToMany
chicken
(Gallus gallus)
Aves SOBP 34
  • 81.4 (n)
  • 86.28 (a)
SOBP 35
  • 84 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SOBP 35
  • 73 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sobp 34
  • 73.01 (n)
  • 78.85 (a)
zebrafish
(Danio rerio)
Actinopterygii sobpa 34
  • 58.86 (n)
  • 58.94 (a)
SOBP (3 of 3) 35
  • 40 (a)
OneToMany
sobpa 35
  • 51 (a)
OneToMany
sobpb 35
  • 41 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Sobp 35
  • 24 (a)
OneToOne
Species where no ortholog for SOBP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SOBP Gene

ENSEMBL:
Gene Tree for SOBP (if available)
TreeFam:
Gene Tree for SOBP (if available)

Paralogs for SOBP Gene

(1) SIMAP similar genes for SOBP Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SOBP: view

No data available for Paralogs for SOBP Gene

Variants for SOBP Gene

Sequence variations from dbSNP and Humsavar for SOBP Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs9486659 - 107,634,891(+) AGCCG(A/G)GCGCC reference, missense
rs846954 -- 107,636,040(+) TGTCA(A/G)CTGAA intron-variant
rs846955 -- 107,637,122(+) AAACT(A/G)AGTCT intron-variant
rs846956 -- 107,638,212(+) ATTTA(G/T)TTATT intron-variant
rs846957 -- 107,638,935(+) TCTTG(C/G)TCTGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SOBP Gene

Variant ID Type Subtype PubMed ID
dgv1012e201 CNV deletion 23290073
esv2732551 CNV deletion 23290073
nsv1073579 CNV deletion 25765185
nsv1073580 CNV deletion 25765185
nsv1122136 CNV deletion 24896259
nsv1146719 CNV insertion 26484159
nsv349993 CNV insertion 16902084
nsv830762 CNV gain 17160897
nsv830763 CNV gain 17160897

Variation tolerance for SOBP Gene

Residual Variation Intolerance Score: 21.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.20; 52.13% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SOBP Gene

Human Gene Mutation Database (HGMD)
SOBP
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SOBP

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SOBP Gene

Disorders for SOBP Gene

MalaCards: The human disease database

(9) MalaCards diseases for SOBP Gene - From: OMIM, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
mental retardation, anterior maxillary protrusion, and strabismus
  • mrams
postcholecystectomy syndrome
common bile duct disease
  • common bile duct diseases
biliary dyskinesia
  • sphincter of oddi dysfunction
amblyopia
- elite association - COSMIC cancer census association via MalaCards
Search SOBP in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

SOBP_HUMAN
  • Mental retardation, anterior maxillary protrusion, and strabismus (MRAMS) [MIM:613671]: A syndrome characterized by severe mental retardation, strabismus and dysmorphic features such as anterior maxillary protrusion with vertical maxillary excess, open bite and prominent crowded teeth. Some patients may lack dysmorphic features and manifest temporal lobe epilepsy and psychosis. Esotropia and amblyopia are present in some individuals. {ECO:0000269 PubMed:21035105}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for SOBP

Genetic Association Database (GAD)
SOBP
Human Genome Epidemiology (HuGE) Navigator
SOBP
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SOBP
genes like me logo Genes that share disorders with SOBP: view

No data available for Genatlas for SOBP Gene

Publications for SOBP Gene

  1. PolySUMO-binding proteins identified through a string search. (PMID: 23086935) Sun H. … Hunter T. (J. Biol. Chem. 2012) 3 4 65
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 65
  3. SOBP is mutated in syndromic and nonsyndromic intellectual disability and is highly expressed in the brain limbic system. (PMID: 21035105) Birk E. … Basel-Vanagaite L. (Am. J. Hum. Genet. 2010) 3 4 65
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 65
  5. A directed protein interaction network for investigating intracellular signal transduction. (PMID: 21900206) Vinayagam A. … Wanker E.E. (Sci Signal 2011) 3 65

Products for SOBP Gene

Sources for SOBP Gene

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