Sec13 (SEC13 homolog, nuclear pore and COPII coat complex component) - Rat Genome Database

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Gene: Sec13 (SEC13 homolog, nuclear pore and COPII coat complex component) Chinchilla lanigera
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Symbol: Sec13
Name: SEC13 homolog, nuclear pore and COPII coat complex component
RGD ID: 8766547
Description: ENCODES a protein that exhibits identical protein binding (ortholog); INVOLVED IN cellular response to nutrient levels (ortholog); COPII-coated vesicle cargo loading (ortholog); endoplasmic reticulum to Golgi vesicle-mediated transport (ortholog); PARTICIPATES IN mRNA nuclear export pathway; ASSOCIATED WITH Atrioventricular Septal Defect 2 (ortholog); Myoclonic Epilepsies (ortholog); myoclonic-atonic epilepsy (ortholog); FOUND IN COPII vesicle coat (ortholog); GATOR2 complex (ortholog); intracellular membrane-bounded organelle (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SEC13 homolog
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555611,707,053 - 1,723,862 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555611,707,053 - 1,723,715 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Sec13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555611,707,053 - 1,723,862 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555611,707,053 - 1,723,715 (-)NCBIChiLan1.0ChiLan1.0
SEC13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38310,300,931 - 10,321,112 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl310,293,131 - 10,321,112 (-)EnsemblGRCh38hg38GRCh38
GRCh37310,342,615 - 10,362,796 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36310,317,615 - 10,337,855 (-)NCBINCBI36Build 36hg18NCBI36
Build 34310,317,616 - 10,337,855NCBI
Celera310,278,423 - 10,298,663 (-)NCBICelera
Cytogenetic Map3p25.3NCBI
HuRef310,277,973 - 10,298,216 (-)NCBIHuRef
CHM1_1310,292,741 - 10,312,907 (-)NCBICHM1_1
T2T-CHM13v2.0310,294,231 - 10,314,421 (-)NCBIT2T-CHM13v2.0
Sec13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396113,705,013 - 113,717,642 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6113,705,023 - 113,717,704 (-)EnsemblGRCm39 Ensembl
GRCm386113,728,052 - 113,740,681 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6113,728,062 - 113,740,743 (-)EnsemblGRCm38mm10GRCm38
MGSCv376113,678,046 - 113,690,675 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366113,693,829 - 113,706,458 (-)NCBIMGSCv36mm8
Celera6115,553,563 - 115,566,192 (-)NCBICelera
Cytogenetic Map6E3NCBI
cM Map652.84NCBI
Sec13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84148,433,344 - 148,446,735 (-)NCBIGRCr8
mRatBN7.24146,877,739 - 146,891,130 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4146,875,524 - 146,891,173 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4152,262,389 - 152,275,663 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04148,043,260 - 148,056,534 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04146,671,488 - 146,684,762 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04145,686,186 - 145,699,577 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4145,686,193 - 145,699,577 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04208,982,585 - 208,995,976 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44149,637,058 - 149,650,449 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14149,881,901 - 149,895,290 (-)NCBI
Celera4135,432,416 - 135,445,807 (-)NCBICelera
Cytogenetic Map4q42NCBI
SEC13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2210,296,920 - 10,317,714 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1310,301,680 - 10,322,438 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0310,237,101 - 10,257,694 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1310,588,644 - 10,608,754 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl310,588,644 - 10,608,754 (-)Ensemblpanpan1.1panPan2
SEC13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1208,041,485 - 8,075,078 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl208,041,544 - 8,075,076 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha208,075,852 - 8,109,440 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0208,071,236 - 8,104,785 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl208,071,294 - 8,107,266 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1207,793,128 - 7,826,671 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0208,138,831 - 8,172,389 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0208,112,442 - 8,146,040 (+)NCBIUU_Cfam_GSD_1.0
Sec13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494215,879,223 - 15,896,270 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366023,013,337 - 3,030,486 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366023,013,490 - 3,030,489 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEC13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1366,480,169 - 66,524,384 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11366,483,620 - 66,524,411 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21373,547,020 - 73,570,002 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SEC13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12246,336,909 - 46,357,435 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2246,336,829 - 46,355,723 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041120,179,801 - 120,200,334 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sec13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247315,194,961 - 5,217,821 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247315,194,852 - 5,217,821 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000001711   ⟹   ENSCLAP00000001668
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049555611,707,053 - 1,723,862 (-)Ensembl
RefSeq Acc Id: XM_005413078   ⟹   XP_005413135
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555611,707,053 - 1,723,715 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013509095   ⟹   XP_013364549
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555611,707,053 - 1,723,679 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013509096   ⟹   XP_013364550
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555611,708,410 - 1,723,715 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005413135 (Get FASTA)   NCBI Sequence Viewer  
  XP_013364549 (Get FASTA)   NCBI Sequence Viewer  
  XP_013364550 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000001668
  ENSCLAP00000001668.1
RefSeq Acc Id: XP_005413135   ⟸   XM_005413078
- Peptide Label: isoform X1
- UniProtKB: A0A8C2UQD8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013364549   ⟸   XM_013509095
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_013364550   ⟸   XM_013509096
- Peptide Label: isoform X3
- Sequence:
Ensembl Acc Id: ENSCLAP00000001668   ⟸   ENSCLAT00000001711


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000001247 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000001711 ENTREZGENE
  ENSCLAT00000001711.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
InterPro Sec13/Seh1_fam UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
  WD40_repeat UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
NCBI Gene Sec13 ENTREZGENE
PANTHER PTHR11024 UniProtKB/TrEMBL
  PTHR11024:SF2 UniProtKB/TrEMBL
Pfam WD40 UniProtKB/TrEMBL
PROSITE WD_REPEATS_2 UniProtKB/TrEMBL
  WD_REPEATS_REGION UniProtKB/TrEMBL
SMART WD40 UniProtKB/TrEMBL
Superfamily-SCOP SSF50978 UniProtKB/TrEMBL
UniProt A0A8C2UQD8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-25 Sec13  SEC13 homolog, nuclear pore and COPII coat complex component    SEC13 homolog (S. cerevisiae)  Symbol and/or name change 5135510 APPROVED