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    Tecta tectorin alpha [ Rattus norvegicus (Norway rat) ]

    Gene ID: 300653, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Tectaprovided by RGD
    Official Full Name
    tectorin alphaprovided by RGD
    Primary source
    RGD:1309824
    See related
    EnsemblRapid:ENSRNOG00000031126 AllianceGenome:RGD:1309824
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be an extracellular matrix structural constituent. Predicted to be involved in cell-matrix adhesion. Predicted to act upstream of or within auditory receptor cell stereocilium organization. Predicted to be located in extracellular region. Predicted to be active in extracellular matrix. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 12; autosomal recessive nonsyndromic deafness 21; and sensorineural hearing loss. Orthologous to human TECTA (tectorin alpha). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 49.5) and Brain (RPKM 5.5) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tecta in Genome Data Viewer
    Location:
    8q22
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (51604974..51676745, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (42707962..42779726, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (46603728..46675658, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene sterol-C5-desaturase Neighboring gene small nucleolar RNA SNORA17 Neighboring gene tubulin folding cofactor E-like Neighboring gene uncharacterized LOC102549755

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. An alpha-tectorin gene defect causes a newly identified autosomal recessive form of sensorineural pre-lingual non-syndromic deafness, DFNB21. Mustapha M, et al. Hum Mol Genet, 1999 Mar. PMID 9949200
    2. Mutations in the human alpha-tectorin gene cause autosomal dominant non-syndromic hearing impairment. Verhoeven K, et al. Nat Genet, 1998 May. PMID 9590290
    3. The mouse tectorins. Modular matrix proteins of the inner ear homologous to components of the sperm-egg adhesion system. Legan PK, et al. J Biol Chem, 1997 Mar 28. PMID 9079715
    4. Large-scale proteomics and phosphoproteomics of urinary exosomes. Gonzales PA, et al. J Am Soc Nephrol, 2009 Feb. PMID 19056867, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables extracellular matrix structural constituent IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables extracellular matrix structural constituent ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within auditory receptor cell stereocilium organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in cell-matrix adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    alpha-tectorin

    NCBI Reference Sequences (RefSeq)

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    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.

    mRNA and Protein(s)

    1. NM_001106814.1 → NP_001100284.1  alpha-tectorin precursor

      See identical proteins and their annotated locations for NP_001100284.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473975
      UniProtKB/TrEMBL
      A6J3T0
      Related
      ENSRNOP00000042496.3, ENSRNOT00000052293.5
      Conserved Domains (10) summary
      smart00216
      Location:703 → 865
      VWD; von Willebrand factor (vWF) type D domain
      smart00241
      Location:1805 → 2059
      ZP; Zona pellucida (ZP) domain
      smart00539
      Location:98 → 254
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      smart00832
      Location:517 → 591
      C8; This domain contains 8 conserved cysteine residues
      pfam00094
      Location:322 → 478
      VWD; von Willebrand factor type D domain
      pfam00100
      Location:1937 → 2057
      Zona_pellucida; Zona pellucida-like domain
      pfam01826
      Location:597 → 650
      TIL; Trypsin Inhibitor like cysteine rich domain
      pfam08742
      Location:1298 → 1368
      C8; C8 domain
      pfam14670
      Location:2089 → 2121
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      cl17735
      Location:652 → 706
      VWC; von Willebrand factor type C domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      51604974..51676745 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039081047.2 → XP_038936975.1  alpha-tectorin isoform X2

      Conserved Domains (9) summary
      smart00216
      Location:703 → 865
      VWD; von Willebrand factor (vWF) type D domain
      smart00241
      Location:1800 → 2054
      ZP; Zona pellucida (ZP) domain
      smart00539
      Location:98 → 254
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      smart00832
      Location:517 → 591
      C8; This domain contains 8 conserved cysteine residues
      cl17735
      Location:652 → 706
      VWC; von Willebrand factor type C domain
      pfam00094
      Location:322 → 478
      VWD; von Willebrand factor type D domain
      pfam08742
      Location:1300 → 1368
      C8; C8 domain
      pfam14670
      Location:2084 → 2116
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      cd19941
      Location:597 → 650
      TIL; trypsin inhibitor-like cysteine rich domain

    2. XM_008766130.4 → XP_008764352.1  alpha-tectorin isoform X1

      UniProtKB/TrEMBL
      D4A7Z6
      Conserved Domains (10) summary
      smart00216
      Location:703 → 865
      VWD; von Willebrand factor (vWF) type D domain
      smart00241
      Location:1805 → 2059
      ZP; Zona pellucida (ZP) domain
      smart00539
      Location:98 → 254
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      smart00832
      Location:517 → 591
      C8; This domain contains 8 conserved cysteine residues
      pfam00094
      Location:322 → 478
      VWD; von Willebrand factor type D domain
      pfam00100
      Location:1937 → 2057
      Zona_pellucida; Zona pellucida-like domain
      pfam01826
      Location:597 → 650
      TIL; Trypsin Inhibitor like cysteine rich domain
      pfam08742
      Location:1298 → 1368
      C8; C8 domain
      pfam14670
      Location:2089 → 2121
      FXa_inhibition; Coagulation Factor Xa inhibitory site
      cl17735
      Location:652 → 706
      VWC; von Willebrand factor type C domain
    Nucleotide Protein Strain
    Heading Accession and Version

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