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SEC22C SEC22 homolog C, vesicle trafficking protein [ Homo sapiens (human) ]

Gene ID: 9117, updated on 11-Sep-2019

Summary

Official Symbol
SEC22Cprovided by HGNC
Official Full Name
SEC22 homolog C, vesicle trafficking proteinprovided by HGNC
Primary source
HGNC:HGNC:16828
See related
Ensembl:ENSG00000093183 MIM:604028
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
SEC22L3
Summary
This gene encodes a member of the SEC22 family of vesicle trafficking proteins. The encoded protein is localized to the endoplasmic reticulum and may play a role in the early stages of ER-Golgi protein trafficking. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Jan 2011]
Expression
Ubiquitous expression in prostate (RPKM 10.0), bone marrow (RPKM 7.3) and 25 other tissues See more
Orthologs

Genomic context

See SEC22C in Genome Data Viewer
Location:
3p22.1
Exon count:
11
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (42547969..42603127, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (42589459..42642572, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ribosomal protein L35a pseudogene 8 Neighboring gene vasoactive intestinal peptide receptor 1 Neighboring gene VIPR1 antisense RNA 1 Neighboring gene SS18 like 2 Neighboring gene uncharacterized LOC101928323 Neighboring gene natural killer cell triggering receptor Neighboring gene zinc finger and BTB domain containing 47 Neighboring gene RNA, 7SL, cytoplasmic 567, 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

Pathways from BioSystems

  • Asparagine N-linked glycosylation, organism-specific biosystem (from REACTOME)
    Asparagine N-linked glycosylation, organism-specific biosystemN-linked glycosylation is the most important form of post-translational modification for proteins synthesized and folded in the Endoplasmic Reticulum (Stanley et al. 2009). An early study in 1999 rev...
  • COPII (Coat Protein 2) Mediated Vesicle Transport, organism-specific biosystem (from REACTOME)
    COPII (Coat Protein 2) Mediated Vesicle Transport, organism-specific biosystemCOPII components (known as Sec13p, Sec23p, Sec24p, Sec31p, and Sar1p in yeast) traffic cargo from the endoplasmic reticulum to the ER-Golgi intermediate compartment (ERGIC). COPII-coated vesicles wer...
  • ER to Golgi Anterograde Transport, organism-specific biosystem (from REACTOME)
    ER to Golgi Anterograde Transport, organism-specific biosystemSecretory cargo destined to be secreted or to arrive at the plasma membrane (PM) leaves the ER via distinct exit sites. This cargo is destined for the Golgi apparatus for further processing.
  • Membrane Trafficking, organism-specific biosystem (from REACTOME)
    Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
  • Metabolism of proteins, organism-specific biosystem (from REACTOME)
    Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
  • Post-translational protein modification, organism-specific biosystem (from REACTOME)
    Post-translational protein modification, organism-specific biosystemAfter translation, many newly formed proteins undergo further covalent modifications that alter their functional properties and that are essentially irreversible under physiological conditions in the...
  • Transport to the Golgi and subsequent modification, organism-specific biosystem (from REACTOME)
    Transport to the Golgi and subsequent modification, organism-specific biosystemAt least two mechanisms of transport of proteins from the ER to the Golgi have been described. One is a general flow requiring no export signals (Wieland et al, 1987; Martinez-Menarguez et al, 1999)....
  • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
    Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC5373, MGC13261, DKFZp761F2321

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
ER to Golgi vesicle-mediated transport TAS
Traceable Author Statement
more info
PubMed 
protein transport IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
endoplasmic reticulum TAS
Traceable Author Statement
more info
PubMed 
endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
vesicle-trafficking protein SEC22c
Names
SEC22 vesicle trafficking protein homolog C
SEC22 vesicle trafficking protein-like 3
SEC22 vesicle trafficking protein-like protein C
secretion deficient 22C

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.

mRNA and Protein(s)

  1. NM_001201572.2NP_001188501.1  vesicle-trafficking protein SEC22c isoform b

    See identical proteins and their annotated locations for NP_001188501.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' and 3' UTRs and uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (b), is shorter and has a distinct C-terminus, compared to isoform a. Variants 2 and 3 encode the same isoform (b).
    Source sequence(s)
    BC018437, BX377531, CB410223, DA434403
    Consensus CDS
    CCDS2699.1
    UniProtKB/Swiss-Prot
    Q9BRL7
    UniProtKB/TrEMBL
    A0A024R2Q1
    Related
    ENSP00000407564.1, ENST00000417572.5
    Conserved Domains (1) summary
    pfam13774
    Location:42114
    Longin; Regulated-SNARE-like domain
  2. NM_001201584.2NP_001188513.1  vesicle-trafficking protein SEC22c isoform c

    See identical proteins and their annotated locations for NP_001188513.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 3' UTR, lacks an exon in the 3' coding region and uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (c), is shorter and has a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AK074576, AY359041
    Consensus CDS
    CCDS56246.1
    UniProtKB/Swiss-Prot
    Q9BRL7
    Related
    ENSP00000414576.2, ENST00000423701.6
    Conserved Domains (1) summary
    pfam13774
    Location:3899
    Longin; Regulated-SNARE-like domain
  3. NM_004206.4NP_004197.1  vesicle-trafficking protein SEC22c isoform b

    See identical proteins and their annotated locations for NP_004197.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (b), is shorter and has a distinct C-terminus, compared to isoform a. Variants 2 and 3 encode the same isoform (b).
    Source sequence(s)
    AK074576, BC018437, CB410223
    Consensus CDS
    CCDS2699.1
    UniProtKB/Swiss-Prot
    Q9BRL7
    UniProtKB/TrEMBL
    A0A024R2Q1
    Related
    ENSP00000273156.7, ENST00000273156.11
    Conserved Domains (1) summary
    pfam13774
    Location:42114
    Longin; Regulated-SNARE-like domain
  4. NM_032970.4NP_116752.1  vesicle-trafficking protein SEC22c isoform a

    See identical proteins and their annotated locations for NP_116752.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AC092047, AK074576, BC006178, CB410223
    Consensus CDS
    CCDS2700.1
    UniProtKB/Swiss-Prot
    Q9BRL7
    UniProtKB/TrEMBL
    A0A024R2N5
    Related
    ENSP00000264454.3, ENST00000264454.8
    Conserved Domains (1) summary
    pfam13774
    Location:42114
    Longin; Regulated-SNARE-like domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    42547969..42603127 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024453813.1XP_024309581.1  vesicle-trafficking protein SEC22c isoform X1

    Conserved Domains (1) summary
    pfam13774
    Location:42114
    Longin; Regulated-SNARE-like domain
  2. XM_024453815.1XP_024309583.1  vesicle-trafficking protein SEC22c isoform X2

    Conserved Domains (1) summary
    pfam13774
    Location:42114
    Longin; Regulated-SNARE-like domain
  3. XM_024453812.1XP_024309580.1  vesicle-trafficking protein SEC22c isoform X1

    Conserved Domains (1) summary
    pfam13774
    Location:42114
    Longin; Regulated-SNARE-like domain
  4. XM_024453814.1XP_024309582.1  vesicle-trafficking protein SEC22c isoform X2

    Related
    ENSP00000391170.1, ENST00000456515.5
    Conserved Domains (1) summary
    pfam13774
    Location:42114
    Longin; Regulated-SNARE-like domain
  5. XM_005265535.1XP_005265592.1  vesicle-trafficking protein SEC22c isoform X3

    See identical proteins and their annotated locations for XP_005265592.1

    Conserved Domains (1) summary
    pfam13774
    Location:144
    Longin; Regulated-SNARE-like domain
  6. XM_005265533.1XP_005265590.1  vesicle-trafficking protein SEC22c isoform X3

    See identical proteins and their annotated locations for XP_005265590.1

    Conserved Domains (1) summary
    pfam13774
    Location:144
    Longin; Regulated-SNARE-like domain
  7. XM_024453817.1XP_024309585.1  vesicle-trafficking protein SEC22c isoform X3

    Conserved Domains (1) summary
    pfam13774
    Location:144
    Longin; Regulated-SNARE-like domain
  8. XM_005265534.1XP_005265591.1  vesicle-trafficking protein SEC22c isoform X3

    See identical proteins and their annotated locations for XP_005265591.1

    Conserved Domains (1) summary
    pfam13774
    Location:144
    Longin; Regulated-SNARE-like domain
  9. XM_017007439.2XP_016862928.1  vesicle-trafficking protein SEC22c isoform X4

  10. XM_017007438.2XP_016862927.1  vesicle-trafficking protein SEC22c isoform X4

  11. XM_011534212.2XP_011532514.1  vesicle-trafficking protein SEC22c isoform X1

    See identical proteins and their annotated locations for XP_011532514.1

    UniProtKB/Swiss-Prot
    Q9BRL7
    UniProtKB/TrEMBL
    A0A024R2N5
    Conserved Domains (1) summary
    pfam13774
    Location:42114
    Longin; Regulated-SNARE-like domain
  12. XM_024453816.1XP_024309584.1  vesicle-trafficking protein SEC22c isoform X3

    Related
    ENSP00000415969.1, ENST00000451653.5
    Conserved Domains (1) summary
    pfam13774
    Location:144
    Longin; Regulated-SNARE-like domain
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