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SEC23B SEC23 homolog B, COPII coat complex component [ Homo sapiens (human) ]

Gene ID: 10483, updated on 3-May-2020

Summary

Official Symbol
SEC23Bprovided by HGNC
Official Full Name
SEC23 homolog B, COPII coat complex componentprovided by HGNC
Primary source
HGNC:HGNC:10702
See related
Ensembl:ENSG00000101310 MIM:610512
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
CWS7; CDAII; CDAN2; CDA-II; HEMPAS; hSec23B
Summary
The protein encoded by this gene is a member of the SEC23 subfamily of the SEC23/SEC24 family, which is involved in vesicle trafficking. The encoded protein has similarity to yeast Sec23p component of COPII. COPII is the coat protein complex responsible for vesicle budding from the ER. The function of this gene product has been implicated in cargo selection and concentration. Multiple alternatively spliced transcript variants have been identified in this gene. [provided by RefSeq, Feb 2010]
Expression
Ubiquitous expression in thyroid (RPKM 28.7), testis (RPKM 16.8) and 25 other tissues See more
Orthologs

Genomic context

See SEC23B in Genome Data Viewer
Location:
20p11.23
Exon count:
22
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 20 NC_000020.11 (18507482..18561415)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (18488188..18542059)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene RB binding protein 9, serine hydrolase Neighboring gene ribosomal protein S19 pseudogene 1 Neighboring gene small integral membrane protein 26 Neighboring gene Sharpr-MPRA regulatory region 13138

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

Gene Ontology Provided by GOA

Function Evidence Code Pubs
GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
cargo loading into COPII-coated vesicle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
intracellular protein transport IEA
Inferred from Electronic Annotation
more info
 
positive regulation of GTPase activity IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
COPII vesicle coat IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
cytosol IEA
Inferred from Electronic Annotation
more info
 
endomembrane system IDA
Inferred from Direct Assay
more info
PubMed 
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 membrane IEA
Inferred from Electronic Annotation
more info
 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
protein transport protein Sec23B
Names
SEC23 homolog B, coat complex II component
SEC23-like protein B
SEC23-related protein B
transport protein SEC23B

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_016281.2 RefSeqGene

    Range
    5459..58934
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_1134

mRNA and Protein(s)

  1. NM_001172745.3NP_001166216.1  protein transport protein Sec23B isoform 1

    See identical proteins and their annotated locations for NP_001166216.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) has an alternate 5' UTR exon, as compared to variant 2. Variants 1, 2, 3 and 4 encode the same isoform (1).
    Source sequence(s)
    AL121893, AL121900, BC005032, BC005404, DC351945
    Consensus CDS
    CCDS13137.1
    UniProtKB/Swiss-Prot
    Q15437
    Related
    ENSP00000366685.1, ENST00000377465.6
    Conserved Domains (1) summary
    cl27110
    Location:12765
    zf-Sec23_Sec24; Sec23/Sec24 zinc finger
  2. NM_001172746.3NP_001166217.1  protein transport protein Sec23B isoform 2

    See identical proteins and their annotated locations for NP_001166217.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses an alternative splice site and lacks an in-frame segment in the 5' CDS, as compared to variant 2. The resulting isoform (2) lacks an internal segment, as compared to isoform 1.
    Source sequence(s)
    AK296270, AL121900, BC005032
    Consensus CDS
    CCDS86935.1
    Related
    ENSP00000496460.1, ENST00000643747.1
    Conserved Domains (6) summary
    cd11287
    Location:594714
    Sec23_C; C-terminal Actin depolymerization factor-homology domain of Sec23
    PLN00162
    Location:12747
    PLN00162; transport protein sec23; Provisional
    cd01478
    Location:123372
    Sec23-like; Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes ...
    pfam04810
    Location:5897
    zf-Sec23_Sec24; Sec23/Sec24 zinc finger
    pfam04815
    Location:506599
    Sec23_helical; Sec23/Sec24 helical domain
    pfam08033
    Location:385488
    Sec23_BS; Sec23/Sec24 beta-sandwich domain
  3. NM_006363.6NP_006354.2  protein transport protein Sec23B isoform 1

    See identical proteins and their annotated locations for NP_006354.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) uses an alternative splice site and lacks a segment in the 5' UTR, as compared to variant 2. Variants 1, 2, 3 and 4 encode the same isoform (1).
    Source sequence(s)
    BC001151, BC095404, CA307855, X97065
    Consensus CDS
    CCDS13137.1
    UniProtKB/Swiss-Prot
    Q15437
    Related
    ENSP00000497473.1, ENST00000650089.1
    Conserved Domains (1) summary
    cl27110
    Location:12765
    zf-Sec23_Sec24; Sec23/Sec24 zinc finger
  4. NM_032985.6NP_116780.1  protein transport protein Sec23B isoform 1

    See identical proteins and their annotated locations for NP_116780.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) represents the longest transcript. Variants 1, 2, 3 and 4 encode the same isoform (1).
    Source sequence(s)
    BC005032, BC095404, BM925053, CA307855, EC528189
    Consensus CDS
    CCDS13137.1
    UniProtKB/Swiss-Prot
    Q15437
    Related
    ENSP00000338844.3, ENST00000336714.8
    Conserved Domains (1) summary
    cl27110
    Location:12765
    zf-Sec23_Sec24; Sec23/Sec24 zinc finger
  5. NM_032986.4NP_116781.1  protein transport protein Sec23B isoform 1

    See identical proteins and their annotated locations for NP_116781.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site and lacks a segment in the 5' UTR, as compared to variant 2. Variants 1, 2, 3 and 4 encode the same isoform (1).
    Source sequence(s)
    AL540773, BC001151, BC095404, CA307855, DC401693
    Consensus CDS
    CCDS13137.1
    UniProtKB/Swiss-Prot
    Q15437
    Related
    ENSP00000262544.2, ENST00000262544.6
    Conserved Domains (1) summary
    cl27110
    Location:12765
    zf-Sec23_Sec24; Sec23/Sec24 zinc finger

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
    18507482..18561415
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017027593.1XP_016883082.1  protein transport protein Sec23B isoform X1

    UniProtKB/Swiss-Prot
    Q15437
    Conserved Domains (1) summary
    cl27110
    Location:12765
    zf-Sec23_Sec24; Sec23/Sec24 zinc finger
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