Display Settings:

Format

Send to:

Choose Destination
We are sorry, but NCBI web applications do not support your browser and may not function properly. More information

    DFNB31 deafness, autosomal recessive 31 [ Homo sapiens (human) ]

    Gene ID: 25861, updated on 5-May-2013
    Official Symbol
    DFNB31provided by HGNC
    Official Full Name
    deafness, autosomal recessive 31provided by HGNC
    Primary source
    HGNC:16361
    Locus tag
    RP11-9M16.1
    See related
    Ensembl:ENSG00000095397; HPRD:09718; MIM:607928; Vega:OTTHUMG00000020539
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    WI; WHRN; CIP98; USH2D; RP11-9M16.1
    Summary
    This gene is thought to function in the organization and stabilization of sterocilia elongation and actin cystoskeletal assembly, based on studies of the related mouse gene. Mutations in this gene have been associated with autosomal recessive non-syndromic deafness and Usher Syndrome. Alternative splicing of this gene results in multiple transcript variants encoding different isoforms.[provided by RefSeq, Mar 2010]
    Location :
    9q32
    Sequence :
    Chromosome: 9; NC_000009.11 (117164360..117267736, complement)
    See DFNB31 in Epigenomics, MapViewer

    Chromosome 9 - NC_000009.11Genomic Context describing neighboring genes Neighboring gene orosomucoid 2 Neighboring gene AT-hook transcription factor Neighboring gene small EDRK-rich factor 2 pseudogene Neighboring gene ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G1 Neighboring gene chromosome 9 open reading frame 91

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    Deafness, autosomal recessive 31

    Summary from GeneReviews: Deafness and Hereditary Hearing Loss Overview Go to GeneReviews

    Disease Characteristics
    Hereditary hearing loss and deafness may be conductive, sensorineural, or a combination of both; syndromic (associated with malformations of the external ear or other organs or with medical problems involving other organ systems) or nonsyndromic (no associated visible abnormalities of the external ear or any related medical problems); and prelingual (before language develops) or postlingual (after language develops).
    Diagnosis Testing
    Genetic forms of hearing loss must be distinguished from acquired (non-genetic) causes of hearing loss. The genetic forms of hearing loss are diagnosed by otologic, audiologic, and physical examination, family history, ancillary testing (e.g., CT examination of the temporal bone), and molecular genetic testing. Molecular genetic testing, available in clinical laboratories for many types of syndromic and nonsyndromic deafness, plays a prominent role in diagnosis and genetic counseling.
    Genetic Counseling
    Hereditary hearing loss can be inherited in an autosomal dominant, autosomal recessive, or X-linked recessive manner, as well as by mitochondrial inheritance. Genetic counseling and risk assessment depend on accurate determination of the specific genetic diagnosis. In the absence of a specific diagnosis, empiric recurrence risk figures, coupled with GJB2 and GJB6 molecular genetic testing results, can be used for genetic counseling.
    References

    Usher syndrome, type 2D

    Summary from GeneReviews: Usher Syndrome Type II Go to GeneReviews

    Disease Characteristics
    Usher syndrome type II is characterized by congenital (i.e., prelingual) bilateral sensorineural hearing loss that is mild to moderate in the low frequencies and severe to profound in the higher frequencies, intact vestibular responses, and retinitis pigmentosa (RP). RP is progressive, bilateral, symmetric retinal degeneration that begins with night blindness and constricted visual fields (tunnel vision) and eventually includes decreased central visual acuity; the rate and degree of vision loss vary within and among families.
    Diagnosis Testing
    The diagnosis of Usher syndrome type II is established on clinical grounds using electrophysiologic and subjective tests of hearing and retinal function. Three genes are known to be associated with Usher syndrome type II: USH2A (accounting for 80% of cases), GPR98 (VLGR1) (~15% of cases), and DFNB31 (<5% of cases). A fourth locus has been provisionally mapped to 15q. Molecular genetic testing for USH2A, GPR98, and DFNB31 is available clinically.
    Genetic Counseling
    Usher syndrome type II is inherited in an autosomal recessive manner. Each subsequent pregnancy of a couple who has had a child with Usher syndrome type II has a 25% chance of resulting in an affected child, a 50% chance of resulting in an unaffected child who is a carrier, and a 25% chance of resulting in an unaffected child who is not a carrier. Prenatal testing is possible for pregnancies at increased risk for USH2A if the disease-causing mutations have been identified in the family.
    References
    Products Interactant Other Gene Complex Source Pubs Description
    Q9P202 O14936 CASK    HPRD  PubMed  
    Q9P202 Q9P202 DFNB31    HPRD  PubMed  
    Q9P202 O75096 LRP4    HPRD  PubMed  
    Q9P202 Q9HCJ2 LRRC4C    HPRD  PubMed  
    Q9P202 Q9UKN7 MYO15A    HPRD  PubMed  
    Q9P202 Q13402 MYO7A    HPRD  PubMed  
    BioGRID:117381 BioGRID:110218 LRP4    BioGRID  PubMed Two-hybrid 

    Markers

    Homology

    Clone Names

    • KIAA1526, DKFZp434N014

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    inner ear receptor stereocilium organization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    retina homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    sensory perception of light stimulus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    sensory perception of sound IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    actin filament IEA
    Inferred from Electronic Annotation
    more info
     
    cilium IEA
    Inferred from Electronic Annotation
    more info
     
    cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    growth cone IEA
    Inferred from Electronic Annotation
    more info
     
    stereocilia ankle link complex IEA
    Inferred from Electronic Annotation
    more info
     
    stereocilium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Preferred Names
    whirlin
    Names
    whirlin
    CASK-interacting protein CIP98
    autosomal recessive deafness type 31 protein

    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.

    Genomic

    1. NG_016700.1 RefSeqGene

      Range
      5001..108377
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001083885.2NP_001077354.2  whirlin isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) has multiple differences in the presence and absence of exons at its 5' end, compared to variant 1. These differences produce a unique 5' UTR and cause translation initiation at a downstream start codon, compared to variant 1. The encoded protein (isoform 2) is shorter than isoform 1.
      Source sequence(s)
      AL110228, BC136416, BC142614, DA502065
      Consensus CDS
      CCDS43870.1
      UniProtKB/TrEMBL
      B9EGE6
      UniProtKB/Swiss-Prot
      Q9P202
      Related
      ENSP00000265134, OTTHUMP00000021976, ENST00000265134, OTTHUMT00000053773
      Conserved Domains (2) summary
      cd00992
      Location:436494
      Blast Score: 115
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd07357
      Location:36116
      Blast Score: 395
      HN_L-whirlin_R2_like; Second harmonin_N_like domain (repeat 2) of the long isoform of whirlin, and related domains.
    2. NM_001173425.1NP_001166896.1  whirlin isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) contains an alternate, in-frame splice site in the 3' coding region, compared to variant 1. The encoded protein (isoform 3) is shorter than isoform 1.
      Source sequence(s)
      BC014524, BC136416, BC142614, BC142684
      UniProtKB/TrEMBL
      B9EGE6
      UniProtKB/Swiss-Prot
      Q9P202
      Conserved Domains (3) summary
      cd00992
      Location:277357
      Blast Score: 217
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd07356
      Location:38112
      Blast Score: 364
      HN_L-whirlin_R1_like; First harmonin_N_like domain (repeat 1) of the long isoform of whirlin, and related domains.
      cd07357
      Location:419499
      Blast Score: 389
      HN_L-whirlin_R2_like; Second harmonin_N_like domain (repeat 2) of the long isoform of whirlin, and related domains.
    3. NM_015404.3NP_056219.3  whirlin isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      BC136416, BC142614, BC142684
      Consensus CDS
      CCDS6806.1
      UniProtKB/TrEMBL
      B9EGE6
      UniProtKB/Swiss-Prot
      Q9P202
      Related
      ENSP00000354623, OTTHUMP00000021978, ENST00000362057, OTTHUMT00000053776
      Conserved Domains (3) summary
      cd00992
      Location:277357
      Blast Score: 217
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd07356
      Location:38112
      Blast Score: 364
      HN_L-whirlin_R1_like; First harmonin_N_like domain (repeat 1) of the long isoform of whirlin, and related domains.
      cd07357
      Location:419499
      Blast Score: 389
      HN_L-whirlin_R2_like; Second harmonin_N_like domain (repeat 2) of the long isoform of whirlin, and related domains.

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 104

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

    Reference GRCh37.p10 Primary Assembly

    Genomic

    1. NC_000009.11 Reference GRCh37.p10 Primary Assembly

      Range
      117164360..117267736, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000141.1 Alternate HuRef

      Range
      86769691..86872943, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CHM1_1.0

    Genomic

    1. NC_018920.1 Alternate CHM1_1.0

      Range
      117176468..117279809, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

      Supplemental Content

      Recent activity

      Your browsing activity is empty.

      Activity recording is turned off.

      Turn recording back on

      See more...