Sec22c (SEC22 homolog C, vesicle trafficking protein) - Rat Genome Database
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Gene: Sec22c (SEC22 homolog C, vesicle trafficking protein) Mus musculus
Analyze
Symbol: Sec22c
Name: SEC22 homolog C, vesicle trafficking protein
RGD ID: 1616580
MGI Page MGI
Description: Predicted to be involved in protein transport and vesicle-mediated transport. Predicted to localize to endoplasmic reticulum and integral component of membrane. Orthologous to human SEC22C (SEC22 homolog C, vesicle trafficking protein); INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 3,4-methylenedioxymethamphetamine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 4932412K21; 5930407I15Rik; C530046H07; Sec22; SEC22 vesicle trafficking protein homolog C; SEC22 vesicle trafficking protein-like 3; SEC22 vesicle trafficking protein-like C; SEC22 vesicle-trafficking protein homolog C; Sec22l3; vesicle-trafficking protein SEC22c
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399121,509,111 - 121,534,614 (-)NCBIGRCm39mm39
GRCm389121,680,045 - 121,705,548 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9121,680,045 - 121,705,490 (-)EnsemblGRCm38mm10GRCm38
MGSCv379121,589,163 - 121,614,147 (-)NCBIGRCm37mm9NCBIm37
MGSCv369121,531,726 - 121,553,657 (-)NCBImm8
Celera9122,153,707 - 122,178,246 (-)NCBICelera
Cytogenetic Map9F4NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:15782199   PMID:16141072   PMID:16141073   PMID:18799693   PMID:29107558  


Genomics

Comparative Map Data
Sec22c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399121,509,111 - 121,534,614 (-)NCBIGRCm39mm39
GRCm389121,680,045 - 121,705,548 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9121,680,045 - 121,705,490 (-)EnsemblGRCm38mm10GRCm38
MGSCv379121,589,163 - 121,614,147 (-)NCBIGRCm37mm9NCBIm37
MGSCv369121,531,726 - 121,553,657 (-)NCBImm8
Celera9122,153,707 - 122,178,246 (-)NCBICelera
Cytogenetic Map9F4NCBI
SEC22C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl342,547,969 - 42,601,080 (-)EnsemblGRCh38hg38GRCh38
GRCh38342,547,969 - 42,603,127 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37342,589,459 - 42,642,572 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36342,564,476 - 42,598,432 (-)NCBINCBI36hg18NCBI36
Celera342,529,876 - 42,563,833 (-)NCBI
Cytogenetic Map3p22.1NCBI
HuRef342,633,575 - 42,688,134 (-)NCBIHuRef
CHM1_1342,540,655 - 42,593,764 (-)NCBICHM1_1
Sec22c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.08130,319,682 - 130,345,774 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8130,324,495 - 130,338,325 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08129,503,117 - 129,526,994 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera8120,480,730 - 120,505,718 (-)NCBICelera
Cytogenetic Map8q32NCBI
Sec22c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542028,210,790 - 28,230,444 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542028,210,912 - 28,227,015 (+)NCBIChiLan1.0ChiLan1.0
SEC22C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1342,715,553 - 43,571,517 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl342,715,553 - 42,736,927 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0342,452,946 - 42,506,666 (-)NCBIMhudiblu_PPA_v0panPan3
SEC22C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2311,684,002 - 11,706,184 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12311,679,576 - 11,708,047 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Sec22c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366952,525,662 - 2,568,691 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEC22C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1326,082,587 - 26,124,920 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11326,080,934 - 26,125,120 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21328,748,153 - 28,792,135 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SEC22C
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1223,995,170 - 4,029,992 (-)NCBI
ChlSab1.1 Ensembl224,000,461 - 4,029,660 (-)Ensembl
Sec22c
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473077,097,879 - 77,124,284 (+)NCBI

Position Markers
AW822229  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389121,683,347 - 121,683,538UniSTSGRCm38
MGSCv379121,592,465 - 121,592,656UniSTSGRCm37
Celera9122,156,703 - 122,156,894UniSTS
Cytogenetic Map9F4UniSTS
Whitehead/MRC_RH91227.72UniSTS
D9Ertd788e  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm389121,689,692 - 121,689,897UniSTSGRCm38
MGSCv379121,598,810 - 121,599,015UniSTSGRCm37
Celera9122,163,077 - 122,163,282UniSTS
Cytogenetic Map9F4UniSTS
cM Map972.0UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12904947Tammq7_mtibialis anterior muscle mass QTL 7 (mouse)991683173124595110Mouse
13463478Mchq18_mmean corpuscular hemoglobin QTL 18 (mouse)991641084124595110Mouse
1302001Bdln5_mbody length 5 (mouse)Not determined993762590124595110Mouse
13463474Hbbcq5_mhemoglobin concentration QTL 5 (mouse)991641084124595110Mouse
12910772Lvic6_mliver iron content 6 (mouse)991413879124595110Mouse
1357627Tgq2_mtriglyceride QTL 2 (mouse)Not determined9102000187124595110Mouse
13463477Rbc9_mred blood cell count 9 (mouse)991641084124595110Mouse
10412290Pvacm1l_mplasma vascular cell adhesion molecule 1 levels (mouse)Not determined9103289445124595110Mouse
10412242Alpq8_malcohol preference QTL 8 (mouse)Not determined989284925123284925Mouse
12904961Gmmq7_mgastrocnemius muscle mass QTL 7 (mouse)991683173124595110Mouse
1558767Skmw11_mskeletal muscle weight 11 (mouse)Not determined991641084124595110Mouse
13463480Mchcq2_mmean corpuscular hemoglobin concentration QTL 2 (mouse)991641084124595110Mouse
12910773Splic3_mspleen iron content 3 (mouse)991413879124595110Mouse
12879896Berr3_mberghei resistance locus 3 (mouse)9103289445124595110Mouse
11537364Cnes5_mC. neoformans susceptibility locus 5 (mouse)996917590124595110Mouse
14746992Manh67_mmandible shape 67 (mouse)994036768124595110Mouse
1301789Pbwg4_mpostnatal body weight growth 4 (mouse)Not determined9103289445124595110Mouse
18182932Metl3_mmetabolite locus 3, N-acetylglutamate (mouse)989563342123563342Mouse
12880422V25Dq6_mvitamin D inactive form serum level QTL 6 (mouse)987800000121800000Mouse
1357648Obq18_mobesity QTL 18 (mouse)Not determined9102000187124595110Mouse
1301297Lcho1_mliver cholesterol 1 (mouse)Not determined9101060861124595110Mouse
1301649Psl1_mpromotion susceptibility QTL 1 (mouse)Not determined989412277123412396Mouse
12910770Splic1_mspleen iron content 1 (mouse)991413879124595110Mouse
1301484Bwq6_mbody weight (mouse)Not determined993762590124595110Mouse
13463475Hctq7_mhematocrit QTL 7 (mouse)991641084124595110Mouse
12904937Edlmmq9_mextensor digitorum longus muscle mass QTL 9 (mouse)991683173124595110Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:2527
Count of miRNA genes:829
Interacting mature miRNAs:1088
Transcripts:ENSMUST00000078547, ENSMUST00000111560, ENSMUST00000132733, ENSMUST00000139193, ENSMUST00000154978
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001164562 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_178677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006512042 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006512043 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006512044 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_030244233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC159810 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK029985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK031125 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK044249 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK049750 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK189904 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB661643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC046289 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CJ247427 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000078547   ⟹   ENSMUSP00000077628
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,680,045 - 121,704,959 (-)Ensembl
RefSeq Acc Id: ENSMUST00000111560   ⟹   ENSMUSP00000107185
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,683,034 - 121,705,029 (-)Ensembl
RefSeq Acc Id: ENSMUST00000132733
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,688,198 - 121,690,473 (-)Ensembl
RefSeq Acc Id: ENSMUST00000139193   ⟹   ENSMUSP00000114270
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,684,551 - 121,704,979 (-)Ensembl
RefSeq Acc Id: ENSMUST00000154978   ⟹   ENSMUSP00000123170
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,695,600 - 121,705,490 (-)Ensembl
RefSeq Acc Id: ENSMUST00000214595
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,700,556 - 121,705,465 (-)Ensembl
RefSeq Acc Id: ENSMUST00000215056   ⟹   ENSMUSP00000149594
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl9121,684,627 - 121,693,042 (-)Ensembl
RefSeq Acc Id: NM_001164562   ⟹   NP_001158034
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,509,111 - 121,534,095 (-)NCBI
GRCm389121,680,045 - 121,705,029 (-)NCBI
MGSCv379121,589,163 - 121,614,147 (-)RGD
Celera9122,153,707 - 122,178,246 (-)RGD
cM Map9 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_178677   ⟹   NP_848792
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,509,111 - 121,534,095 (-)NCBI
GRCm389121,680,045 - 121,705,029 (-)NCBI
MGSCv379121,589,163 - 121,614,147 (-)RGD
Celera9122,153,707 - 122,178,246 (-)RGD
cM Map9 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006512042   ⟹   XP_006512105
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,509,111 - 121,534,614 (-)NCBI
GRCm389121,681,641 - 121,705,548 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006512043   ⟹   XP_006512106
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,509,111 - 121,534,614 (-)NCBI
GRCm389121,681,641 - 121,705,548 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006512044   ⟹   XP_006512107
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,509,111 - 121,534,178 (-)NCBI
GRCm389121,681,641 - 121,705,117 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030244233   ⟹   XP_030100093
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm399121,509,111 - 121,534,179 (-)NCBI
GRCm389121,681,641 - 121,705,118 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_848792   ⟸   NM_178677
- UniProtKB: Q8BXT9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001158034   ⟸   NM_001164562
- UniProtKB: Q8BXT9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006512106   ⟸   XM_006512043
- Peptide Label: isoform X1
- UniProtKB: Q8BXT9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006512105   ⟸   XM_006512042
- Peptide Label: isoform X1
- UniProtKB: Q8BXT9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006512107   ⟸   XM_006512044
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_030100093   ⟸   XM_030244233
- Peptide Label: isoform X3
RefSeq Acc Id: ENSMUSP00000107185   ⟸   ENSMUST00000111560
RefSeq Acc Id: ENSMUSP00000114270   ⟸   ENSMUST00000139193
RefSeq Acc Id: ENSMUSP00000123170   ⟸   ENSMUST00000154978
RefSeq Acc Id: ENSMUSP00000077628   ⟸   ENSMUST00000078547
RefSeq Acc Id: ENSMUSP00000149594   ⟸   ENSMUST00000215056
Protein Domains
Longin

Promoters
RGD ID:6848465
Promoter ID:MM_ACW:52488
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Spleen
Transcripts:SEC22C.DSEP07-UNSPLICED
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv369121,591,246 - 121,591,746 (-)MPROMDB
RGD ID:6845129
Promoter ID:MM_KWN:59203
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain
Transcripts:OTTMUST00000067892
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv369121,599,516 - 121,600,016 (-)MPROMDB
RGD ID:6845126
Promoter ID:MM_KWN:59204
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day1,   3T3L1_Day2,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_001164562,   OTTMUST00000067889,   OTTMUST00000067890,   OTTMUST00000067891
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv369121,614,139 - 121,614,639 (-)MPROMDB
RGD ID:8671256
Promoter ID:EPDNEW_M13659
Type:multiple initiation site
Name:Sec22c_1
Description:Mus musculus SEC22 homolog C, vesicle trafficking protein , transcriptvariant 2, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm389121,705,020 - 121,705,080EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2447871 AgrOrtholog
Ensembl Genes ENSMUSG00000061536 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000077628 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000107185 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000114270 UniProtKB/TrEMBL
  ENSMUSP00000123170 UniProtKB/TrEMBL
  ENSMUSP00000149594 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000078547 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000111560 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000139193 UniProtKB/TrEMBL
  ENSMUST00000154978 UniProtKB/TrEMBL
  ENSMUST00000215056 UniProtKB/TrEMBL
InterPro Longin-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Longin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sec22a/c UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:215474 UniProtKB/Swiss-Prot
MGD MGI:2447871 ENTREZGENE
NCBI Gene 215474 ENTREZGENE
PANTHER PTHR46258 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Longin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sec22c PhenoGen
PROSITE LONGIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART Longin UniProtKB/Swiss-Prot
Superfamily-SCOP SSF64356 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A1L1SRR6_MOUSE UniProtKB/TrEMBL
  D3Z110_MOUSE UniProtKB/TrEMBL
  D6RE35_MOUSE UniProtKB/TrEMBL
  Q8BXT9 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q8BMH4 UniProtKB/Swiss-Prot
  Q8C0R8 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-10-06 Sec22c  SEC22 homolog C, vesicle trafficking protein    SEC22 vesicle trafficking protein homolog C (S. cerevisiae)  Symbol and/or name change 5135510 APPROVED