Details for: SEC22C

Gene ID: 9117

Gene Type:  Protein-coding  - A gene that serves as a template for producing a messenger RNA (mRNA) molecule, which is then translated into a functional protein.

Symbol: SEC22C

Ensembl ID: ENSG00000093183

Description: SEC22 homolog C, vesicle trafficking protein

Selected Context(s):  Overall

Cell Significance Landscape

Contexts:

Associated with

Significant Cells

Cell Significance Index (CSI) scores for the chosen context(s)

  • myoepithelial cell CL0000185
    CSI 8.82
    rCSI 22.31%
    PRS 82.76
  • double-positive, alpha-beta thymocyte CL0000809
    CSI 8.1
    rCSI 8.25%
    PRS 87.31
  • type B pancreatic cell CL0000169
    CSI 8.01
    rCSI 17.74%
    PRS 76.55
  • granulocyte CL0000094
    CSI 7.1
    rCSI 10.85%
    PRS 84.89
  • sncg GABAergic cortical interneuron CL4023015
    CSI 6.93
    rCSI 11.14%
    PRS 60.6
  • VIP GABAergic cortical interneuron CL4023016
    CSI 6.61
    rCSI 7.9%
    PRS 58.89
  • common myeloid progenitor CL0000049
    CSI 5.22
    rCSI 4.22%
    PRS 79.58
  • retinal rod cell CL0000604
    CSI 5.22
    rCSI 9.2%
    PRS 73.05
  • CD4-positive, alpha-beta thymocyte CL0000810
    CSI 4.58
    rCSI 3.67%
    PRS 91.15
  • effector CD8-positive, alpha-beta T cell CL0001050
    CSI 3.93
    rCSI 2.99%
    PRS 89.23
  • skin fibroblast CL0002620
    CSI 3.71
    rCSI 3.19%
    PRS 78.66
  • double negative thymocyte CL0002489
    CSI 3.48
    rCSI 2.42%
    PRS 88.25
  • megakaryocyte-erythroid progenitor cell CL0000050
    CSI 3.32
    rCSI 3%
    PRS 75.26
  • regular ventricular cardiac myocyte CL0002131
    CSI 3.16
    rCSI 19.71%
    PRS 68.81
  • T-helper 17 cell CL0000899
    CSI 3.12
    rCSI 2.48%
    PRS 93.4
  • rod bipolar cell CL0000751
    CSI 3.09
    rCSI 5.56%
    PRS 70.47
  • lymphoid lineage restricted progenitor cell CL0000838
    CSI 2.81
    rCSI 10.94%
    PRS 92.45
  • precursor B cell CL0000817
    CSI 2.74
    rCSI 2.4%
    PRS 84.71
  • renal alpha-intercalated cell CL0005011
    CSI 2.7
    rCSI 3.61%
    PRS 83.92
  • CD4-positive, alpha-beta memory T cell CL0000897
    CSI 2.68
    rCSI 1.92%
    PRS 89.62
  • interstitial cell of Cajal CL0002088
    CSI 2.63
    rCSI 3.35%
    PRS 82.33
  • perivascular cell CL4033054
    CSI 2.59
    rCSI 3.55%
    PRS 81.78
  • melanocyte CL0000148
    CSI 2.56
    rCSI 1.89%
    PRS 70.41
  • extravillous trophoblast CL0008036
    CSI 2.51
    rCSI 3.11%
    PRS 75
  • colonocyte CL1000347
    CSI 2.41
    rCSI 3.45%
    PRS 78.38
  • neural crest cell CL0011012
    CSI 2.4
    rCSI 1.9%
    PRS 65.46
  • BEST4+ enteroycte CL4030026
    CSI 2.4
    rCSI 2.98%
    PRS 78.6
  • alpha-beta T cell CL0000789
    CSI 2.38
    rCSI 2.79%
    PRS 90.7
  • central memory CD4-positive, alpha-beta T cell CL0000904
    CSI 2.37
    rCSI 1.4%
    PRS 92
  • naive T cell CL0000898
    CSI 2.35
    rCSI 1.63%
    PRS 90.7
  • myeloid leukocyte CL0000766
    CSI 2.35
    rCSI 2.17%
    PRS 78.72
  • pancreatic A cell CL0000171
    CSI 2.34
    rCSI 2.46%
    PRS 80.69
  • pulmonary capillary endothelial cell CL4028001
    CSI 2.33
    rCSI 4.44%
    PRS 87.23
  • alveolar type 1 fibroblast cell CL4028004
    CSI 2.32
    rCSI 2.54%
    PRS 79.39
  • bronchus fibroblast of lung CL2000093
    CSI 2.29
    rCSI 1.86%
    PRS 76.66
  • interneuron CL0000099
    CSI 2.27
    rCSI 4.55%
    PRS 66.95
  • ciliated epithelial cell CL0000067
    CSI 2.24
    rCSI 1.97%
    PRS 66.04
  • effector memory CD8-positive, alpha-beta T cell, terminally differentiated CL0001062
    CSI 2.23
    rCSI 11.19%
    PRS 88.71
  • stem cell CL0000034
    CSI 2.23
    rCSI 2.15%
    PRS 70.07
  • hematopoietic stem cell CL0000037
    CSI 2.22
    rCSI 1.47%
    PRS 80.08
  • choroid plexus epithelial cell CL0000706
    CSI 2.18
    rCSI 3.57%
    PRS 66.56
  • ionocyte CL0005006
    CSI 2.13
    rCSI 2.28%
    PRS 78.24
  • erythroid progenitor cell CL0000038
    CSI 2.12
    rCSI 12.18%
    PRS 83.25
  • epithelial cell of lung CL0000082
    CSI 2.07
    rCSI 1.72%
    PRS 77.78
  • erythrocyte CL0000232
    CSI 2.04
    rCSI 4.62%
    PRS 78.2
  • retinal bipolar neuron CL0000748
    CSI 2.03
    rCSI 3.8%
    PRS 65.23
  • cerebral cortex endothelial cell CL1001602
    CSI 2.03
    rCSI 3.51%
    PRS 68.43
  • hepatic stellate cell CL0000632
    CSI 2
    rCSI 7.51%
    PRS 69.42
  • duct epithelial cell CL0000068
    CSI 1.88
    rCSI 2.75%
    PRS 82.14
  • effector CD4-positive, alpha-beta T cell CL0001044
    CSI 1.85
    rCSI 5.3%
    PRS 93.21
  • plasmacytoid dendritic cell, human CL0001058
    CSI 1.82
    rCSI 1.27%
    PRS 80.53
  • pvalb GABAergic cortical interneuron CL4023018
    CSI 1.81
    rCSI 2.25%
    PRS 56.82
  • vascular leptomeningeal cell CL4023051
    CSI 1.8
    rCSI 3.16%
    PRS 70.59
  • blood vessel endothelial cell CL0000071
    CSI 1.79
    rCSI 3.71%
    PRS 73.96
  • pro-B cell CL0000826
    CSI 1.78
    rCSI 1.47%
    PRS 79.75
  • lung pericyte CL0009089
    CSI 1.77
    rCSI 4.67%
    PRS 84.33
  • kidney loop of Henle thin descending limb epithelial cell CL1001111
    CSI 1.74
    rCSI 2.47%
    PRS 73.94
  • lung neuroendocrine cell CL1000223
    CSI 1.73
    rCSI 2.55%
    PRS 81.67
  • central memory CD8-positive, alpha-beta T cell CL0000907
    CSI 1.71
    rCSI 1.15%
    PRS 89.66
  • lung ciliated cell CL1000271
    CSI 1.69
    rCSI 1.96%
    PRS 69.06
  • sst GABAergic cortical interneuron CL4023017
    CSI 1.68
    rCSI 2.16%
    PRS 60.13
  • group 3 innate lymphoid cell CL0001071
    CSI 1.66
    rCSI 1.25%
    PRS 83.08
  • intermediate monocyte CL0002393
    CSI 1.65
    rCSI 2.48%
    PRS 82.55
  • chondrocyte CL0000138
    CSI 1.53
    rCSI 2.43%
    PRS 70
  • neuroblast (sensu Vertebrata) CL0000031
    CSI 1.52
    rCSI 1.96%
    PRS 73.47
  • pulmonary artery endothelial cell CL1001568
    CSI 1.46
    rCSI 1.98%
    PRS 86.09
  • enteroendocrine cell CL0000164
    CSI 1.44
    rCSI 1.97%
    PRS 77.62
  • glioblast CL0000030
    CSI 1.43
    rCSI 2.27%
    PRS 68.86
  • alveolar adventitial fibroblast CL4028006
    CSI 1.41
    rCSI 2.23%
    PRS 78.92
  • mature B cell CL0000785
    CSI 1.41
    rCSI 1.23%
    PRS 86.67
  • neuroblast (sensu Nematoda and Protostomia) CL0000338
    CSI 1.4
    rCSI 1.62%
    PRS 69.48
  • caudal ganglionic eminence derived cortical interneuron CL4023064
    CSI 1.37
    rCSI 2.43%
    PRS 58.11
  • keratocyte CL0002363
    CSI 1.37
    rCSI 3.3%
    PRS 81.05
  • astrocyte of the cerebral cortex CL0002605
    CSI 1.37
    rCSI 3.08%
    PRS 59.62
  • vascular associated smooth muscle cell CL0000359
    CSI 1.31
    rCSI 4.23%
    PRS 75.33
  • retinal cone cell CL0000573
    CSI 1.28
    rCSI 2.06%
    PRS 67.01
  • hepatocyte CL0000182
    CSI 1.28
    rCSI 2.29%
    PRS 76.55
  • lamp5 GABAergic cortical interneuron CL4023011
    CSI 1.25
    rCSI 2.1%
    PRS 58.92
  • placental villous trophoblast CL2000060
    CSI 1.18
    rCSI 1.83%
    PRS 76.28
  • blood vessel smooth muscle cell CL0019018
    CSI 1.14
    rCSI 9.26%
    PRS 70.94
  • retina horizontal cell CL0000745
    CSI 1.12
    rCSI 1.71%
    PRS 73.96
  • near-projecting glutamatergic cortical neuron CL4023012
    CSI 1.09
    rCSI 4.1%
    PRS 59.4
  • forebrain radial glial cell CL0013000
    CSI 1.04
    rCSI 3.33%
    PRS 79.58
  • mesenchymal cell CL0008019
    CSI 1.03
    rCSI 2.61%
    PRS 70.54
  • peripheral nervous system neuron CL2000032
    CSI 0.93
    rCSI 1.26%
    PRS 68.63
  • retinal ganglion cell CL0000740
    CSI 0.79
    rCSI 1.74%
    PRS 62.83
  • L2/3-6 intratelencephalic projecting glutamatergic neuron CL4023040
    CSI 0.74
    rCSI 1.79%
    PRS 56.96
  • chandelier pvalb GABAergic cortical interneuron CL4023036
    CSI 0.7
    rCSI 2.18%
    PRS 63.05
  • podocyte CL0000653
    CSI 0.69
    rCSI 3.08%
    PRS 77.63
  • L6b glutamatergic cortical neuron CL4023038
    CSI 0.67
    rCSI 2.11%
    PRS 60.6
  • primitive red blood cell CL0002355
    CSI 0.65
    rCSI 3.53%
    PRS 84.37
  • microcirculation associated smooth muscle cell CL0008035
    CSI 0.65
    rCSI 1.87%
    PRS 76.91
  • erythroblast CL0000765
    CSI 0.64
    rCSI 1.69%
    PRS 83.66
  • L5 extratelencephalic projecting glutamatergic cortical neuron CL4023041
    CSI 0.49
    rCSI 1.77%
    PRS 56.87
  • corticothalamic-projecting glutamatergic cortical neuron CL4023013
    CSI 0.34
    rCSI 1.98%
    PRS 59.72
  • direct pathway medium spiny neuron CL4023026
    CSI 0.2
    rCSI 4.78%
    PRS 57.33

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.
Network Configuration

Explore relationships of the current gene. Select an Interaction Source: 'ONTOLOGY' for shared pathways (GO/Reactome) or 'STRING' for protein-protein interactions. Further refine by selecting context genes and comparing Cell Significance Index (CSI) scores between baseline and target cell types and their specific contexts.

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  • Query Gene
  • Node Color (Target Cell CSI, relative to current network):
    • Very High
    • High
    • Medium
    • Low
    • Very Low
    • CSI N/A
  • Node Size: Proportional to Target Cell CSI magnitude
  • STRING PPI Edge
  • Shared Pathway Edge (ONTOLOGY)

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Other Information

This section provides additional information about the gene, including a description generated by an AI language model and details about associated proteins.

## Summary [SEC22C](/details-gene/9117) (SEC22 homolog C, vesicle trafficking protein) is a protein-coding gene located on chromosome 3p22.1. It functions as a core component of the intracellular machinery responsible for vesicle-mediated transport, specifically in the anterograde pathway between the endoplasmic reticulum and the Golgi apparatus. Functional annotations highlight its role in [COPII-mediated vesicle transport](/details-pathway/R-HSA-204005) and post-translational protein modification processes like [asparagine N-linked glycosylation](/details-pathway/R-HSA-446203). Reflecting this fundamental role in protein secretion and processing, [SEC22C](/details-gene/9117) shows significant expression in a diverse array of highly active or secretory cell types, including [myoepithelial cell](/details-cell/CL0000185), developing [double-positive, alpha-beta thymocyte](/details-cell/CL0000809), and hormone-secreting [type B pancreatic cell](/details-cell/CL0000169). ## Cellular Roles and Expression Landscape The expression profile of [SEC22C](/details-gene/9117) suggests its importance in cells with high protein synthesis and trafficking demands. **Overall**, its most significant expression is observed in glandular and secretory cells, such as [myoepithelial cell](/details-cell/CL0000185) (CSI: 8.82) and [type B pancreatic cell](/details-cell/CL0000169) (CSI: 8.01), which are responsible for the secretion of milk components and insulin, respectively. This is consistent with its established role in the secretory pathway. A second major functional context for [SEC22C](/details-gene/9117) is within the immune system, particularly during lymphocyte development and function. High significance scores are noted in several T-cell precursors, including [double-positive, alpha-beta thymocyte](/details-cell/CL0000809) (CSI: 8.10), [CD4-positive, alpha-beta thymocyte](/details-cell/CL0000810) (CSI: 4.58), and [double negative thymocyte](/details-cell/CL0002489) (CSI: 3.48). Its continued importance in mature, functional T cells is indicated by its expression in [effector CD8-positive, alpha-beta T cell](/details-cell/CL0001050) (CSI: 3.93) and [T-helper 17 cell](/details-cell/CL0000899) (CSI: 3.12). This pattern suggests a critical role in trafficking surface receptors and secreting cytokines throughout the T-cell lifecycle. Furthermore, its significance in hematopoietic progenitors like [common myeloid progenitor](/details-cell/CL0000049) (CSI: 5.22) and [megakaryocyte-erythroid progenitor cell](/details-cell/CL0000050) (CSI: 3.32) underscores its foundational role in hematopoiesis. The gene also appears significant in specialized neuronal populations, including [sncg GABAergic cortical interneuron](/details-cell/CL4023015) (CSI: 6.93) and [VIP GABAergic cortical interneuron](/details-cell/CL4023016) (CSI: 6.61), which may reflect a role in the transport of neurotransmitters or receptors. ## Pathways and Molecular Function The molecular functions of [SEC22C](/details-gene/9117) are centered on its role as a vesicle trafficking protein. Gene Ontology (GO) annotations place it in the [endoplasmic reticulum membrane](/details-go/GO:0005789) where it participates in [endoplasmic reticulum to golgi vesicle-mediated transport](/details-go/GO:0006888). This is a critical step in the secretory pathway, essential for moving newly synthesized proteins from the ER to the Golgi for further processing and sorting. Reactome pathway analysis provides a more detailed view of its involvement in fundamental cellular processes. [SEC22C](/details-gene/9117) is a key component of [COPII-mediated vesicle transport](/details-pathway/R-HSA-204005), which is the primary mechanism for [ER to Golgi anterograde transport](/details-pathway/R-HSA-199977). Its function is integral to the broader pathways of [membrane trafficking](/details-pathway/R-HSA-199991) and the overall [metabolism of proteins](/details-pathway/R-HSA-392499). Its role in processes like [asparagine N-linked glycosylation](/details-pathway/R-HSA-446203) further supports its function in the early stages of protein maturation within the ER. The collective evidence from these annotations firmly establishes [SEC22C](/details-gene/9117) as an essential facilitator of the cellular secretory pathway, consistent with its high expression in professionally secretory cells. ## Research Directions Given that [SEC22C](/details-gene/9117) is a core component of the protein secretion machinery, its dysregulation could plausibly contribute to pathologies characterized by abnormal protein trafficking or secretion. **Proposed Hypotheses:** 1. Given its high significance in multiple T-cell subsets, particularly developing thymocytes, aberrant [SEC22C](/details-gene/9117) function or expression may impair the surface trafficking of the T-cell receptor (TCR) complex, leading to defects in T-cell selection, maturation, and subsequent peripheral immune responses. 2. The high significance of [SEC22C](/details-gene/9117) in [type B pancreatic cell](/details-cell/CL0000169) suggests it is a critical factor for insulin secretion. It is hypothesized that genetic variants or acquired dysfunction of [SEC22C](/details-gene/9117) could represent a contributing factor to beta-cell exhaustion or failure in type 2 diabetes by disrupting the efficient transport of proinsulin from the ER to the Golgi. **Experimental Approach:** To test the second hypothesis regarding the role of [SEC22C](/details-gene/9117) in insulin secretion, a targeted experiment could be performed. Using a human pancreatic beta cell line (e.g., EndoC-βH1), CRISPR-Cas9-mediated knockdown or knockout of [SEC22C](/details-gene/9117) could be performed. The functional consequences would be assessed by measuring key endpoints: (i) the ratio of proinsulin to mature insulin using specific ELISAs to evaluate processing efficiency, and (ii) the amount of insulin released in response to low and high glucose challenges (glucose-stimulated insulin secretion assay, GSIS). A significant reduction in insulin secretion and an accumulation of intracellular proinsulin in the [SEC22C](/details-gene/9117)-deficient cells would provide strong evidence for its essential role in the insulin secretory pathway. **Therapeutic Potential:** As a fundamental component of the vesicle trafficking machinery likely required by most cells, [SEC22C](/details-gene/9117) is a challenging therapeutic target. Systemic inhibition would be expected to have widespread and severe off-target toxicity. Therefore, it is unlikely to be a viable candidate for direct therapeutic modulation (either activation or inhibition). Instead, its value may lie as a potential biomarker or a component in a polygenic risk score for diseases involving cellular secretion defects, such as certain immunodeficiencies or metabolic disorders like diabetes. Further research into its cell-type-specific regulation might reveal pathways that could be targeted more safely.

Genular Protein ID: 3682835537

Symbol: SC22C_HUMAN

Name: Vesicle-trafficking protein SEC22c

UniProtKB Accession Codes:

Q9BRL7 O95152 Q68CX3 Q6UW18

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 3 CDD 1 CTD 1 ChiTaRS 1 DMDM 1 DNASU 1 EMBL 8 Ensembl 4 ExpressionAtlas 1 GO 5 Gene3D 1 GeneCards 1 GeneTree 1 GenomeRNAi 1 HGNC 1 HPA 1 InParanoid 1 IntAct 1 InterPro 3 KEGG 1 MANE-Select 1 MIM 1 MINT 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 OrthoDB 1 PANTHER 2 PIR 1 PRO 1 PROSITE 1 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 3 RNAct 1 Reactome 1 RefSeq 5 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 neXtProt 1

Citations:

PubMed ID: 9501016

Title: Hsec22c: a homolog of yeast Sec22p and mammalian rsec22a and msec22b/ERS-24.

PubMed ID: 9501016

DOI: 10.1006/bbrc.1998.8194

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 12975309

Title: The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment.

PubMed ID: 12975309

DOI: 10.1101/gr.1293003

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 17974005

Title: The full-ORF clone resource of the German cDNA consortium.

PubMed ID: 17974005

DOI: 10.1186/1471-2164-8-399

Sequence Information:

  • Length: 303
  • Mass: 34269
  • Checksum: 24F908848A8A9625
  • Sequence:
    • MSVIFFACVV RVRDGLPLSA STDFYHTQDF LEWRRRLKSL ALRLAQYPGR GSAEGCDFSI 
HFSSFGDVAC MAICSCQCPA AMAFCFLETL WWEFTASYDT TCIGLASRPY AFLEFDSIIQ 
KVKWHFNYVS SSQMECSLEK IQEELKLQPP AVLTLEDTDV ANGVMNGHTP MHLEPAPNFR 
MEPVTALGIL SLILNIMCAA LNLIRGVHLA EHSLQVAHEE IGNILAFLVP FVACIFQCYL 
YLFYSPARTM KVVLMLLFIC LGNMYLHGLR NLWQILFHIG VAFLSSYQIL TRQLQEKQSD 
CGV