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USH2A usherin [ Canis lupus familiaris (dog) ]

Gene ID: 488593, updated on 17-Aug-2024

Summary

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Official Symbol
USH2Aprovided by VGNC
Official Full Name
usherinprovided by VGNC
Primary source
VGNC:VGNC:48174
See related
Ensembl:ENSCAFG00845026494
Gene type
protein coding
RefSeq status
MODEL
Organism
Canis lupus familiaris (sub-species: familiaris)
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Carnivora; Caniformia; Canidae; Canis
Orthologs
human mouse all
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Genomic context

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See USH2A in Genome Data Viewer
Location:
chromosome: 38
Exon count:
71
Annotation release Status Assembly Chr Location
106 current ROS_Cfam_1.0 (GCF_014441545.1) 38 NC_051842.1 (11089431..11776697, complement)
106 current Dog10K_Boxer_Tasha (GCF_000002285.5) 38 NC_006620.4 (11100934..11787913, complement)
106 current UU_Cfam_GSD_1.0 (GCF_011100685.1) 38 NC_049259.1 (11739438..12442329, complement)
106 current UMICH_Zoey_3.1 (GCF_005444595.1) 38 NC_049298.1 (11101486..11789687, complement)
106 current UNSW_CanFamBas_1.0 (GCF_013276365.1) 38 NC_049779.1 (11453699..12141739, complement)

Chromosome 38 - NC_051842.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102155620 Neighboring gene potassium channel tetramerization domain containing 3 Neighboring gene estrogen related receptor gamma Neighboring gene U6 spliceosomal RNA Neighboring gene uncharacterized LOC119868037

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. R-locus for roaned coat is associated with a tandem duplication in an intronic region of USH2A in dogs and also contributes to Dalmatian spotting. Kawakami T, et al. PLoS One, 2021. PMID 33755696, Free PMC Article
  2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. R-locus for roaned coat is associated with a tandem duplication in an intronic region of USH2A in dogs and also contributes to Dalmatian spotting.
    Title: R-locus for roaned coat is associated with a tandem duplication in an intronic region of USH2A in dogs and also contributes to Dalmatian spotting.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables protein binding IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
LOW QUALITY PROTEIN: usherin; usherin

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Canis lupus familiaris Annotation Release 106 details...Open this link in a new tab

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

Reference ROS_Cfam_1.0

Genomic

  1. NC_051842.1 Reference ROS_Cfam_1.0

    Range
    11089431..11776697 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_038448764.1 → XP_038304692.1  usherin

    UniProtKB/TrEMBL
    A0A8I3Q290
    Related
    ENSCAFP00845037787.1, ENSCAFT00845048174.1
    Conserved Domains (10) summary
    smart00060
    Location:1363 → 1448
    FN3; Fibronectin type 3 domain
    smart00180
    Location:792 → 831
    EGF_Lam; Laminin-type epidermal growth factor-like domai
    smart00560
    Location:143 → 280
    LamGL; LamG-like jellyroll fold domain
    cd00055
    Location:897 → 945
    EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
    cd00063
    Location:3962 → 4059
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00110
    Location:1516 → 1675
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00041
    Location:1150 → 1229
    fn3; Fibronectin type III domain
    pfam00053
    Location:638 → 688
    Laminin_EGF; Laminin EGF domain
    cl02806
    Location:313 → 513
    Laminin_N; Laminin N-terminal (Domain VI)
    cl21522
    Location:1055 → 1129
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

Alternate UMICH_Zoey_3.1

Genomic

  1. NC_049298.1 Alternate UMICH_Zoey_3.1

    Range
    11101486..11789687 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_038522657.1 → XP_038378585.1  LOW QUALITY PROTEIN: usherin

Alternate UNSW_CanFamBas_1.0

Genomic

  1. NC_049779.1 Alternate UNSW_CanFamBas_1.0

    Range
    11453699..12141739 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_038650847.1 → XP_038506775.1  usherin

Alternate UU_Cfam_GSD_1.0

Genomic

  1. NC_049259.1 Alternate UU_Cfam_GSD_1.0

    Range
    11739438..12442329 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_038586435.1 → XP_038442363.1  LOW QUALITY PROTEIN: usherin

    UniProtKB/TrEMBL
    A0A8P0ND16

Alternate Dog10K_Boxer_Tasha Primary Assembly

Genomic

  1. NC_006620.4 Alternate Dog10K_Boxer_Tasha Primary Assembly

    Range
    11100934..11787913 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_545710.5 → XP_545710.2  usherin

    UniProtKB/TrEMBL
    A0A8P0ND16
    Conserved Domains (9) summary
    smart00060
    Location:1363 → 1448
    FN3; Fibronectin type 3 domain
    smart00180
    Location:792 → 831
    EGF_Lam; Laminin-type epidermal growth factor-like domai
    smart00560
    Location:143 → 280
    LamGL; LamG-like jellyroll fold domain
    cd00055
    Location:897 → 945
    EGF_Lam; Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in ...
    cd00063
    Location:3962 → 4059
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00110
    Location:1516 → 1675
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00041
    Location:4266 → 4338
    fn3; Fibronectin type III domain
    pfam00053
    Location:638 → 688
    Laminin_EGF; Laminin EGF domain
    cl02806
    Location:313 → 513
    Laminin_N; Laminin N-terminal (Domain VI)
Nucleotide Protein
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