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    SHISA4 shisa family member 4 [ Homo sapiens (human) ]

    Gene ID: 149345, updated on 2-Nov-2024

    Summary

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    Official Symbol
    SHISA4provided by HGNC
    Official Full Name
    shisa family member 4provided by HGNC
    Primary source
    HGNC:HGNC:27139
    See related
    Ensembl:ENSG00000198892 MIM:617326; AllianceGenome:HGNC:27139
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    TMEM58; C1orf40
    Summary
    Predicted to be located in membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in brain (RPKM 26.3), heart (RPKM 17.4) and 19 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SHISA4 in Genome Data Viewer
    Location:
    1q32.1
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (201888677..201892587)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (201146432..201150342)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (201857805..201861715)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene neuron navigator 1 Neighboring gene IPO9 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:201796884-201797398 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:201797399-201797912 Neighboring gene Sharpr-MPRA regulatory region 13839 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2322 Neighboring gene microRNA 1231 Neighboring gene Sharpr-MPRA regulatory region 12270 Neighboring gene Sharpr-MPRA regulatory region 11581 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:201837758-201837973 Neighboring gene importin 9 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:201851435-201851934 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2323 Neighboring gene Sharpr-MPRA regulatory region 2190 Neighboring gene microRNA 6739 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2324 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:201883337-201883837 Neighboring gene leiomodin 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:201910579-201911528 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2325 Neighboring gene translocase of inner mitochondrial membrane 17A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. New Transcriptomic Biomarkers of 5-Fluorouracil Resistance.
      Title: New Transcriptomic Biomarkers of 5-Fluorouracil Resistance.
    Submit: New GeneRIF Correction

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ18233, MGC102893, MGC129812, MGC129813

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein shisa-4
    Names
    shisa homolog 4
    transmembrane protein 58

    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_198149.3 → NP_937792.2  protein shisa-4 precursor

      See identical proteins and their annotated locations for NP_937792.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the functional protein.
      Source sequence(s)
      AK294106, BC111855
      Consensus CDS
      CCDS1416.1
      UniProtKB/Swiss-Prot
      B4DFI0, B7ZAJ7, Q5VUU1, Q6P711, Q6UWY7, Q96DD7
      Related
      ENSP00000355064.7, ENST00000362011.7
      Conserved Domains (1) summary
      pfam13908
      Location:28 → 177
      Shisa; Wnt and FGF inhibitory regulator

    RNA

    1. NR_030775.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an alternate 5' exon, compared to variant 1 and as a result lacks the start codon used in variant 1. The transcript is sufficiently abundant to represent as a RefSeq record; however, the predicted protein is not represented because there is uncertainty about the protein-coding capacity of the transcript.
      Source sequence(s)
      AK294106, AL513217, BM923401, DA130234

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      201888677..201892587
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      201146432..201150342
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q96DD7.3 GenPept UniProtKB/Swiss-Prot:Q96DD7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
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