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SHISAL2A shisa like 2A [ Homo sapiens (human) ]

Gene ID: 348378, updated on 5-Mar-2024

Summary

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Official Symbol
SHISAL2Aprovided by HGNC
Official Full Name
shisa like 2Aprovided by HGNC
Primary source
HGNC:HGNC:28757
See related
Ensembl:ENSG00000182183 MIM:620218; AllianceGenome:HGNC:28757
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
FAM159A; PRO7171; WWLS2783
Summary
Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in lymph node (RPKM 1.5), spleen (RPKM 0.8) and 8 other tissues See more
Orthologs
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Genomic context

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See SHISAL2A in Genome Data Viewer
Location:
1p32.3
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (52632788..52669683)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (52514310..52551222)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (53098840..53135355)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene eukaryotic translation elongation factor 1 gamma pseudogene 7 Neighboring gene glutathione peroxidase 7 Neighboring gene uncharacterized LOC124904178 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 894 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 895 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 896 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1034 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1035 Neighboring gene Sharpr-MPRA regulatory region 2435 Neighboring gene Sharpr-MPRA regulatory region 753 Neighboring gene Sharpr-MPRA regulatory region 13275 Neighboring gene MPRA-validated peak230 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 897 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1036 Neighboring gene cytochrome c oxidase assembly factor 7 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:53168550-53169091 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:53169092-53169632 Neighboring gene NADH:ubiquinone oxidoreductase subunit S5 pseudogene 3

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
  • 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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Related articles in PubMed

  1. Unexpected diversity in Shisa-like proteins suggests the importance of their roles as transmembrane adaptors. Pei J, et al. Cell Signal, 2012 Mar. PMID 22120523, Free PMC Article
  2. Creation of genome-wide protein expression libraries using random activation of gene expression. Harrington JJ, et al. Nat Biotechnol, 2001 May. PMID 11329013
  3. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. Clark HF, et al. Genome Res, 2003 Oct. PMID 12975309, Free PMC Article
  4. RIG-I regulates myeloid differentiation by promoting TRIM25-mediated ISGylation. Wu SF, et al. Proc Natl Acad Sci U S A, 2020 Jun 23. PMID 32513696, Free PMC Article
  5. A reference map of the human binary protein interactome. Luck K, et al. Nature, 2020 Apr. PMID 32296183, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

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)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC52498

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-like-2A
Names
family with sequence similarity 159 member A
membrane protein FAM159A

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_001042693.3 → NP_001036158.1  protein shisa-like-2A

    See identical proteins and their annotated locations for NP_001036158.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the supported protein.
    Source sequence(s)
    AK128236, AL356976, AY358621, BG192125
    Consensus CDS
    CCDS41336.1
    UniProtKB/Swiss-Prot
    Q6UWV7, Q6ZRG4
    Related
    ENSP00000429726.1, ENST00000517870.2

RNA

  1. NR_135156.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains an additional internal exon and a different 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC099784, AJ573663, AK128236, AL356976, BC041608
    Related
    ENST00000401050.7

  2. NR_135157.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate 3' exon structue, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK128236, AL356976, BC041608
    Related
    ENST00000440303.5

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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
    52632788..52669683
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011541378.3 → XP_011539680.1  protein shisa-like-2A isoform X2

  2. XM_011541377.3 → XP_011539679.1  protein shisa-like-2A isoform X1

RNA

  1. XR_946635.3 RNA Sequence

  2. XR_007059587.1 RNA Sequence

  3. XR_946636.3 RNA Sequence

  4. XR_946637.2 RNA Sequence

  5. XR_946639.3 RNA Sequence

  6. XR_007059593.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    52514310..52551222
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054336372.1 → XP_054192347.1  protein shisa-like-2A isoform X2

  2. XM_054336371.1 → XP_054192346.1  protein shisa-like-2A isoform X1

RNA

  1. XR_008486024.1 RNA Sequence

  2. XR_008486025.1 RNA Sequence

  3. XR_008486026.1 RNA Sequence

  4. XR_008486027.1 RNA Sequence

  5. XR_008486028.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6UWV7.2 GenPept UniProtKB/Swiss-Prot:Q6UWV7

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