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ATRN attractin [ Homo sapiens (human) ]

Gene ID: 8455, updated on 4-Jun-2020

Summary

Official Symbol
ATRNprovided by HGNC
Official Full Name
attractinprovided by HGNC
Primary source
HGNC:HGNC:885
See related
Ensembl:ENSG00000088812 MIM:603130
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
MGCA; DPPT-L
Summary
This gene encodes both membrane-bound and secreted protein isoforms. A membrane-bound isoform exhibits sequence similarity with the mouse mahogany protein, a receptor involved in controlling obesity. A secreted isoform is involved in the initial immune cell clustering during inflammatory responses that may regulate the chemotactic activity of chemokines. [provided by RefSeq, Apr 2016]
Expression
Ubiquitous expression in duodenum (RPKM 20.8), thyroid (RPKM 17.2) and 25 other tissues See more
Orthologs

Genomic context

See ATRN in Genome Data Viewer
Location:
20p13
Exon count:
31
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (3471018..3651118)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (3451665..3631769)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene chromosome 20 open reading frame 194 Neighboring gene UBE2V1 pseudogene 1 Neighboring gene uncharacterized LOC105372508 Neighboring gene uncharacterized LOC105372509 Neighboring gene splicing factor 3a, subunit 3 pseudogene 1 Neighboring gene GDNF family receptor alpha 4 Neighboring gene ADAM metallopeptidase domain 33

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0548, MGC126754

Gene Ontology Provided by GOA

Function Evidence Code Pubs
carbohydrate binding IEA
Inferred from Electronic Annotation
more info
 
signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
animal organ morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cerebellum development IEA
Inferred from Electronic Annotation
more info
 
inflammatory response IEA
Inferred from Electronic Annotation
more info
 
myelination IEA
Inferred from Electronic Annotation
more info
 
pigmentation IEA
Inferred from Electronic Annotation
more info
 
regulation of multicellular organism growth IEA
Inferred from Electronic Annotation
more info
 
response to oxidative stress IEA
Inferred from Electronic Annotation
more info
 
substrate adhesion-dependent cell spreading IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
tissue development IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
basement membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
extracellular exosome HDA PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
attractin
Names
attractin-2
mahogany homolog
mahogany protein

NCBI Reference Sequences (RefSeq)

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_029406.1 RefSeqGene

    Range
    5001..185101
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001207047.3NP_001193976.1  attractin isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate splice junction at the 3' end of the first exon and differs in the 3' UTR and coding region compared to variant 1. The resulting isoform (4) has distinct N- and C-termini compared to isoform 1. Unlike isoform 1, which is membrane-bound, isoform 4 is secreted.
    Source sequence(s)
    AK293010, AK302730, AL132773, BC101705, DA368237
    UniProtKB/Swiss-Prot
    O75882
    UniProtKB/TrEMBL
    B4DZ36
    Conserved Domains (7) summary
    cd03597
    Location:672804
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00041
    Location:23131
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cd00055
    Location:946991
    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 ...
    sd00038
    Location:385434
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:816867
    PSI; Plexin repeat
    pfam13415
    Location:234284
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:274312
    Kelch_5; Kelch motif
  2. NM_001323332.2NP_001310261.1  attractin isoform 5 precursor

    Status: REVIEWED

    Source sequence(s)
    AK293010, AL132773
    UniProtKB/Swiss-Prot
    O75882
    Conserved Domains (7) summary
    cd03597
    Location:788920
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00041
    Location:132247
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cd00055
    Location:10621107
    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 ...
    sd00038
    Location:501550
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:932983
    PSI; Plexin repeat
    pfam13415
    Location:350400
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:392428
    Kelch_5; Kelch motif
  3. NM_139321.3NP_647537.1  attractin isoform 1 preproprotein

    See identical proteins and their annotated locations for NP_647537.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest protein (isoform 1), which is contained in the membrane.
    Source sequence(s)
    AB011120, AL132773, BC101705, BE326239, DB240822, EC440053
    Consensus CDS
    CCDS13053.1
    UniProtKB/Swiss-Prot
    O75882
    Related
    ENSP00000262919.5, ENST00000262919.10
    Conserved Domains (7) summary
    cd03597
    Location:788920
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00041
    Location:132247
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cd00055
    Location:10621107
    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 ...
    sd00038
    Location:501550
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:932983
    PSI; Plexin repeat
    pfam13415
    Location:350400
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:390428
    Kelch_5; Kelch motif
  4. NM_139322.4NP_647538.1  attractin isoform 2 preproprotein

    See identical proteins and their annotated locations for NP_647538.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding region compared to variant 1, resulting in an isoform (2) with a distinct C-terminus compared to isoform 1. Unlike isoform 1, which is membrane-bound, isoform 2 is secreted.
    Source sequence(s)
    AK293010, AK302730, AL132773, BC101705, EC440053
    Consensus CDS
    CCDS13054.1
    UniProtKB/Swiss-Prot
    O75882
    UniProtKB/TrEMBL
    B4DZ36
    Related
    ENSP00000416587.2, ENST00000446916.2
    Conserved Domains (7) summary
    cd03597
    Location:788920
    CLECT_attractin_like; C-type lectin-like domain (CTLD) of the type found in human and mouse attractin (AtrN) and attractin-like protein (ALP)
    cd00041
    Location:132247
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cd00055
    Location:10621107
    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 ...
    sd00038
    Location:501550
    Kelch; KELCH repeat [structural motif]
    pfam01437
    Location:932983
    PSI; Plexin repeat
    pfam13415
    Location:350400
    Kelch_3; Galactose oxidase, central domain
    pfam13854
    Location:392428
    Kelch_5; Kelch motif

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000020.11 Reference GRCh38.p13 Primary Assembly

    Range
    3471018..3651118
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_012070.2: Suppressed sequence

    Description
    NM_012070.2: This RefSeq was permanently suppressed because it was based on a sequence representing a cloning artifact.
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