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SEC31A SEC31 homolog A, COPII coat complex component [ Homo sapiens (human) ]

Gene ID: 22872, updated on 27-Jun-2020

Summary

Official Symbol
SEC31Aprovided by HGNC
Official Full Name
SEC31 homolog A, COPII coat complex componentprovided by HGNC
Primary source
HGNC:HGNC:17052
See related
Ensembl:ENSG00000138674 MIM:610257
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
ABP125; ABP130; HSPC275; HSPC334; NEDSOSB; SEC31L1
Summary
The protein encoded by this gene shares similarity with the yeast Sec31 protein, and is a component of the outer layer of the coat protein complex II (COPII). The encoded protein is involved in vesicle budding from the endoplasmic reticulum (ER) and contains multiple WD repeats near the N-terminus and a proline-rich region in the C-terminal half. It associates with the protein encoded by the SEC13 homolog, nuclear pore and COPII coat complex component (SEC13), and is required for ER-Golgi transport. Monoubiquitylation of this protein by CUL3-KLHL12 was found to regulate the size of COPII coats to accommodate unusually shaped cargo. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Dec 2015]
Expression
Ubiquitous expression in ovary (RPKM 48.8), thyroid (RPKM 42.6) and 25 other tissues See more
Orthologs

Genomic context

See SEC31A in Genome Data Viewer
Location:
4q21.22
Exon count:
30
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 4 NC_000004.12 (82818509..82900571, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (83739814..83812419, complement)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene stearoyl-CoA desaturase 5 Neighboring gene PQ loop repeat containing 1 pseudogene 2 Neighboring gene microRNA 575 Neighboring gene THAP9 antisense RNA 1 Neighboring gene small nucleolar RNA, C/D box 143 Neighboring gene small nucleolar RNA, C/D box 144 Neighboring gene THAP domain containing 9 Neighboring gene lin-54 DREAM MuvB core complex component Neighboring gene RNA, U6 small nuclear 615, pseudogene

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?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120/MBL complex co-localizes with intracellular COPII vesicle markers Sec31A and Sec13 in neuronal cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0905, MGC90305, DKFZp686N07171

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium-dependent protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
structural molecule activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
COPII vesicle coating TAS
Traceable Author Statement
more info
 
COPII-coated vesicle budding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ER to Golgi vesicle-mediated transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ER to Golgi vesicle-mediated transport NAS
Non-traceable Author Statement
more info
PubMed 
IRE1-mediated unfolded protein response TAS
Traceable Author Statement
more info
 
antigen processing and presentation of exogenous peptide antigen via MHC class II TAS
Traceable Author Statement
more info
 
antigen processing and presentation of peptide antigen via MHC class I TAS
Traceable Author Statement
more info
 
cargo loading into COPII-coated vesicle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cargo loading into COPII-coated vesicle IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
response to calcium ion IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
COPII vesicle coat IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
COPII vesicle coat IDA
Inferred from Direct Assay
more info
PubMed 
COPII vesicle coat NAS
Non-traceable Author Statement
more info
PubMed 
COPII-coated ER to Golgi transport vesicle IDA
Inferred from Direct Assay
more info
PubMed 
ER to Golgi transport vesicle membrane TAS
Traceable Author Statement
more info
 
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum exit site IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum exit site IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum exit site IMP
Inferred from Mutant Phenotype
more info
PubMed 
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
vesicle coat IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein transport protein Sec31A
Names
SEC31 homolog A, COPII coating complex component
SEC31-like protein 1
SEC31-related protein A
web1-like protein
yeast Sec31p homolog

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_029569.3 RefSeqGene

    Range
    14419..87063
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001077206.3NP_001070674.1  protein transport protein Sec31A isoform 4

    See identical proteins and their annotated locations for NP_001070674.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks an alternate in-frame exon in the 3' coding region, compared to variant 5. The encoded isoform (4) has the same N- and C-termini, but is shorter and has a different internal amino acid compared to isoform 1.
    Source sequence(s)
    AI802473, BC084583, BE710081, CA428539, DA218900, DA720299
    Consensus CDS
    CCDS43244.1
    UniProtKB/Swiss-Prot
    O94979
    Related
    ENSP00000309070.7, ENST00000311785.11
    Conserved Domains (4) summary
    COG2319
    Location:31353
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:1365
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:84340
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:573696
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
  2. NM_001077207.4NP_001070675.1  protein transport protein Sec31A isoform 1

    See identical proteins and their annotated locations for NP_001070675.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) encodes the longest isoform (1). Both variants 5 and 10 encode the same protein.
    Source sequence(s)
    AC021105, AC108469
    Consensus CDS
    CCDS3596.1
    UniProtKB/Swiss-Prot
    O94979
    UniProtKB/TrEMBL
    A0A024RDD3
    Related
    ENSP00000378721.2, ENST00000395310.7
    Conserved Domains (4) summary
    COG2319
    Location:31353
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:1365
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:84340
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:573696
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
  3. NM_001077208.3NP_001070676.1  protein transport protein Sec31A isoform 3

    See identical proteins and their annotated locations for NP_001070676.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' coding region, compared to variant 5. The encoded isoform (3) has the same N- and C-termini, but is shorter than isoform 1. Both variants 3 and 9 encode the same isoform (3).
    Source sequence(s)
    AI802473, AY137583, BC039834, BE710081, CA428539, DA218900, DA720299
    Consensus CDS
    CCDS47088.1
    UniProtKB/Swiss-Prot
    O94979
    Related
    ENSP00000424635.1, ENST00000508502.5
    Conserved Domains (4) summary
    COG2319
    Location:31353
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:1365
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:84340
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:573696
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
  4. NM_001191049.2NP_001177978.1  protein transport protein Sec31A isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) lacks an exon in the 5' region, resulting in a distinct 5' UTR , use of an upstream in-frame start codon, and also uses an alternate in-frame splice site in the 3' coding region, compared to variant 5. The encoded isoform (5) is shorter, has a distinct N-terminus, and lacks an internal region, compared to isoform 1
    Source sequence(s)
    AI802473, AK295810, BC039834, BE710081, DA218900, DC342364
    Consensus CDS
    CCDS54773.1
    UniProtKB/Swiss-Prot
    O94979
    Related
    ENSP00000408027.2, ENST00000443462.6
    Conserved Domains (4) summary
    COG2319
    Location:26348
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:65114
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:79335
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:568691
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
  5. NM_001300744.2NP_001287673.1  protein transport protein Sec31A isoform 6

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) lacks two consecutive alternate in-frame exons in the central coding region and an alternate in-frame exon in the 3' coding region, compared to variant 5. The encoded isoform (6) has the same N- and C-termini, but is shorter and has an alternate internal amino acid compared to isoform 1.
    Source sequence(s)
    AI802473, AK225934, AL704825, BC084583, BE710081, CR933696, DA218900
    Consensus CDS
    CCDS75155.1
    UniProtKB/Swiss-Prot
    O94979
    Related
    ENSP00000426886.1, ENST00000513858.5
    Conserved Domains (4) summary
    COG2319
    Location:31353
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:1365
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:84340
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:534657
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
  6. NM_001300745.2NP_001287674.1  protein transport protein Sec31A isoform 7

    See identical proteins and their annotated locations for NP_001287674.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) lacks two consecutive alternate in-frame exons in the central coding region and uses an alternate in-frame splice site in the 3' coding region, compared to variant 5. The encoded isoform (7) has the same N- and C-termini, but is shorter than isoform 1.
    Source sequence(s)
    AI802473, AK225934, AL704825, BC084583, BC143492, BE710081, DA218900
    Consensus CDS
    CCDS75156.1
    UniProtKB/Swiss-Prot
    O94979
    Related
    ENSP00000424451.1, ENST00000505984.5
    Conserved Domains (4) summary
    COG2319
    Location:31353
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:1365
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:84340
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:534657
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
  7. NM_001318119.1NP_001305048.1  protein transport protein Sec31A isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) lacks 3 nucleotides in its 5' UTR and uses an alternate in-frame splice site in the 3' coding region, compared to variant 5. The encoded isoform (3) has the same N- and C-termini, but is shorter than isoform 1. Both variants 3 and 9 encode the same isoform (3).
    Source sequence(s)
    AI802473, BC047883, BC143489, BE710081, BM677531, DA218900, DB287803
    Consensus CDS
    CCDS47088.1
    UniProtKB/Swiss-Prot
    O94979
    Conserved Domains (4) summary
    COG2319
    Location:31353
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:1365
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:84340
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:573696
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
  8. NM_001318120.1NP_001305049.1  protein transport protein Sec31A isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) differs in the 5' UTR compared to variant 5. Both variants 5 and 10 encode the same protein (isoform 1). This variant is a read-through transcript between the upstream non-coding THAP9-AS1 locus (GeneID:100499177) and the downstream SEC31A locus (GeneID:22872).
    Source sequence(s)
    AB020712, AI802473, AK225934, BE710081, DA142666
    Consensus CDS
    CCDS3596.1
    UniProtKB/Swiss-Prot
    O94979
    UniProtKB/TrEMBL
    A0A024RDD3
    Related
    ENSP00000347329.2, ENST00000355196.6
    Conserved Domains (4) summary
    COG2319
    Location:31353
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:1365
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:84340
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:573696
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
  9. NM_016211.4NP_057295.2  protein transport protein Sec31A isoform 2

    See identical proteins and their annotated locations for NP_057295.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks two consecutive alternate in-frame exons in the central coding region, compared to variant 5. The encoded isoform (2) has the same N- and C-termini, but is shorter than isoform 1.
    Source sequence(s)
    AB018358, AB020712, AI802473, AK225934, BC031292, BE710081, DA218900, DA720299
    Consensus CDS
    CCDS3597.1
    UniProtKB/Swiss-Prot
    O94979
    UniProtKB/TrEMBL
    A0A024RDH6
    Related
    ENSP00000337602.5, ENST00000348405.8
    Conserved Domains (4) summary
    COG2319
    Location:31353
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:1365
    7WD40; WD40 repeat [structural motif]
    cl02567
    Location:84340
    WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    cl14807
    Location:534657
    ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16

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_000004.12 Reference GRCh38.p13 Primary Assembly

    Range
    82818509..82900571 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_014933.3: Suppressed sequence

    Description
    NM_014933.3: This RefSeq was removed because currently there is insufficient support for the transcript.
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