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Aliases for B9D1 Gene

Aliases for B9D1 Gene

  • B9 Protein Domain 1 2 3
  • MKSR1 3 4 6
  • Endothelial Precursor Protein B9 2 3
  • MKS1-Related Protein 1 3 4
  • MKS9 3 6
  • B9 Domain-Containing Protein 1 3
  • EPPB9 3
  • B9 3

External Ids for B9D1 Gene

Previous GeneCards Identifiers for B9D1 Gene

  • GC17M019188
  • GC17M018626

Summaries for B9D1 Gene

Entrez Gene Summary for B9D1 Gene

  • This gene encodes a B9 domain-containing protein, one of several that are involved in ciliogenesis. Alterations in expression of this gene have been found in a family with Meckel syndrome. Meckel syndrome has been associated with at least six different genes. This gene is located within the Smith-Magenis syndrome region on chromosome 17. Three alternatively spliced transcript variants that encode different proteins have been described for this gene. [provided by RefSeq, Aug 2011]

GeneCards Summary for B9D1 Gene

B9D1 (B9 Protein Domain 1) is a Protein Coding gene. Diseases associated with B9D1 include meckel syndrome 9 and b9d1-related meckel syndrome. GO annotations related to this gene include hedgehog receptor activity. An important paralog of this gene is B9D2.

UniProtKB/Swiss-Prot for B9D1 Gene

  • Component of the tectonic-like complex, a complex localized at the transition zone of primary cilia and acting as a barrier that prevents diffusion of transmembrane proteins between the cilia and plasma membranes. Required for ciliogenesis and sonic hedgehog/SHH signaling (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for B9D1 Gene

Genomics for B9D1 Gene

Regulatory Elements for B9D1 Gene

Transcription factor binding sites by QIAGEN in the B9D1 gene promoter:

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for B9D1 Gene

19,337,250 bp from pter
19,378,182 bp from pter
40,933 bases
Minus strand

Genomic View for B9D1 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for B9D1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for B9D1 Gene

Proteins for B9D1 Gene

  • Protein details for B9D1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    B9 domain-containing protein 1
    Protein Accession:
    Secondary Accessions:
    • Q9BU22

    Protein attributes for B9D1 Gene

    204 amino acids
    Molecular mass:
    22775 Da
    Quaternary structure:
    • Part of the tectonic-like complex (also named B9 complex).

    Alternative splice isoforms for B9D1 Gene


neXtProt entry for B9D1 Gene

Proteomics data for B9D1 Gene at MOPED

Post-translational modifications for B9D1 Gene

  • Ubiquitination at Lys180
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for B9D1 Gene

Domains for B9D1 Gene

Protein Domains for B9D1 Gene


Suggested Antigen Peptide Sequences for B9D1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Q9UPM9
  • Contains 1 B9 domain.
  • Belongs to the B9D family.
genes like me logo Genes that share domains with B9D1: view

No data available for Gene Families for B9D1 Gene

Function for B9D1 Gene

Molecular function for B9D1 Gene

UniProtKB/Swiss-Prot Function: Component of the tectonic-like complex, a complex localized at the transition zone of primary cilia and acting as a barrier that prevents diffusion of transmembrane proteins between the cilia and plasma membranes. Required for ciliogenesis and sonic hedgehog/SHH signaling (By similarity).

Gene Ontology (GO) - Molecular Function for B9D1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
GO:0008158 hedgehog receptor activity ISS --
genes like me logo Genes that share ontologies with B9D1: view
genes like me logo Genes that share phenotypes with B9D1: view

Animal Models for B9D1 Gene

MGI Knock Outs for B9D1:
  • B9d1 tm1d(EUCOMM)Wtsi

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for B9D1 Gene

Localization for B9D1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for B9D1 Gene

Cytoplasm, cytoskeleton, cilium basal body. Cytoplasm, cytoskeleton, cilium axoneme. Note=Localizes at the transition zone, a region between the basal body and the ciliary axoneme. {ECO:0000250}.

Subcellular locations from

Jensen Localization Image for B9D1 Gene COMPARTMENTS Subcellular localization image for B9D1 gene
Compartment Confidence
cytoskeleton 5
extracellular 3
cytosol 1
nucleus 1

Gene Ontology (GO) - Cellular Components for B9D1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm --
GO:0005813 centrosome IDA 19208769
GO:0005829 cytosol TAS --
GO:0016020 membrane IEA --
GO:0035869 ciliary transition zone ISS --
genes like me logo Genes that share ontologies with B9D1: view

Pathways for B9D1 Gene

SuperPathways for B9D1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for B9D1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001701 in utero embryonic development IEA --
GO:0001944 vasculature development IEA --
GO:0006996 organelle organization TAS --
GO:0007224 smoothened signaling pathway ISS --
GO:0032880 regulation of protein localization IEA --
genes like me logo Genes that share ontologies with B9D1: view

No data available for Pathways by source for B9D1 Gene

Transcripts for B9D1 Gene

Unigene Clusters for B9D1 Gene

B9 protein domain 1:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for B9D1

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for B9D1 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8a · 8b · 8c ^ 9
SP1: - - -
SP2: - - - -
SP3: -
SP4: - -
SP6: - - - - - -

Relevant External Links for B9D1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for B9D1 Gene

mRNA expression in normal human tissues for B9D1 Gene

SOURCE GeneReport for Unigene cluster for B9D1 Gene Hs.462445

genes like me logo Genes that share expressions with B9D1: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein expression and mRNA Expression by UniProt/SwissProt for B9D1 Gene

Orthologs for B9D1 Gene

This gene was present in the common ancestor of animals.

Orthologs for B9D1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia B9D1 35
  • 99.84 (n)
  • 100 (a)
B9D1 36
  • 100 (a)
(Bos Taurus)
Mammalia B9D1 35
  • 89.54 (n)
  • 94.61 (a)
B9D1 36
  • 95 (a)
(Canis familiaris)
Mammalia B9D1 35
  • 91.5 (n)
  • 95.1 (a)
B9D1 36
  • 50 (a)
(Mus musculus)
Mammalia B9d1 35
  • 87.91 (n)
  • 94.61 (a)
B9d1 16
B9d1 36
  • 95 (a)
(Monodelphis domestica)
Mammalia B9D1 36
  • 82 (a)
(Ornithorhynchus anatinus)
Mammalia B9D1 36
  • 76 (a)
(Rattus norvegicus)
Mammalia LOC100911746 35
  • 87.58 (n)
  • 95.59 (a)
(Gallus gallus)
Aves B9D1 35
  • 74.21 (n)
  • 80.53 (a)
B9D1 36
  • 66 (a)
(Anolis carolinensis)
Reptilia B9D1 36
  • 68 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.23494 35
tropical clawed frog
(Silurana tropicalis)
Amphibia b9d1 35
  • 76.52 (n)
  • 81.72 (a)
Str.18 35
(Danio rerio)
Actinopterygii b9d1 35
  • 73.23 (n)
  • 81.91 (a)
b9d1 36
  • 53 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006071 35
  • 48.25 (n)
  • 37.57 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG14870 35
  • 49.27 (n)
  • 35.71 (a)
CG14870 36
  • 26 (a)
(Caenorhabditis elegans)
Secernentea mksr-1 35
  • 43.78 (n)
  • 29.52 (a)
mksr-1 36
  • 21 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.5634 35
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 63 (a)
Species with no ortholog for B9D1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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 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)

Evolution for B9D1 Gene

Gene Tree for B9D1 (if available)
Gene Tree for B9D1 (if available)

Paralogs for B9D1 Gene

Paralogs for B9D1 Gene

genes like me logo Genes that share paralogs with B9D1: view

Variants for B9D1 Gene

Sequence variations from dbSNP and Humsavar for B9D1 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs1039805 -- 19,353,862(-) cctga(A/G)ttcaa intron-variant
rs1106374 -- 19,362,283(+) CGGTA(C/T)TAGCT intron-variant
rs1964703 -- 19,353,811(-) aggca(C/T)gtacc intron-variant
rs2048230 -- 19,372,886(+) CTTGC(A/G)GCAGA intron-variant
rs2296978 -- 19,362,639(-) TTCTA(A/G)GGCAA missense, reference, intron-variant, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for B9D1 Gene

Variant ID Type Subtype PubMed ID
nsv833393 CNV Gain+Loss 17160897
nsv907864 CNV Loss 21882294

Relevant External Links for B9D1 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for B9D1 Gene

Disorders for B9D1 Gene

(1) OMIM Diseases for B9D1 Gene (614144)


  • Meckel syndrome 9 (MKS9) [MIM:614209]: A disorder characterized by a combination of renal cysts and variably associated features including developmental anomalies of the central nervous system (typically encephalocele), hepatic ductal dysplasia and cysts, and polydactyly. {ECO:0000269 PubMed:21493627}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(3) University of Copenhagen DISEASES for B9D1 Gene

genes like me logo Genes that share disorders with B9D1: view

Publications for B9D1 Gene

  1. B9D1 is revealed as a novel Meckel syndrome (MKS) gene by targeted exon-enriched next-generation sequencing and deletion analysis. (PMID: 21493627) Hopp K. … Harris P.C. (Hum. Mol. Genet. 2011) 2 3 4
  2. Functional interactions between the ciliopathy-associated Meckel syndrome 1 (MKS1) protein and two novel MKS1-related (MKSR) proteins. (PMID: 19208769) Bialas N.J. … Leroux M.R. (J. Cell Sci. 2009) 3 4
  3. Congenital Hepatic Fibrosis Overview (PMID: 20301743) Pagon R.A. … Stephens K. ( 1993) 3
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3
  5. A protein interaction framework for human mRNA degradation. (PMID: 15231747) Lehner B. … Sanderson C.M. (Genome Res. 2004) 3

Products for B9D1 Gene

Sources for B9D1 Gene

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