Sec16a (SEC16 homolog A, endoplasmic reticulum export factor) - Rat Genome Database

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Gene: Sec16a (SEC16 homolog A, endoplasmic reticulum export factor) Rattus norvegicus
Analyze
Symbol: Sec16a
Name: SEC16 homolog A, endoplasmic reticulum export factor
RGD ID: 2322350
Description: Predicted to be involved in several processes, including Golgi vesicle transport; protein localization to endoplasmic reticulum exit site; and protein stabilization. Predicted to be located in several cellular components, including Golgi apparatus; endoplasmic reticulum membrane; and perinuclear region of cytoplasm. Predicted to be active in ER to Golgi transport vesicle membrane and endoplasmic reticulum exit site. Orthologous to human SEC16A (SEC16 homolog A, endoplasmic reticulum export factor); PARTICIPATES IN inositol phosphate metabolic pathway; phosphatidylinositol 3-kinase signaling pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100360302; SEC16 homolog A; SEC16 homolog A (S. cerevisiae); SEC16 homolog A-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8329,627,779 - 29,662,925 (-)NCBIGRCr8
mRatBN7.239,229,687 - 9,264,837 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl39,229,687 - 9,264,273 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx312,283,667 - 12,318,439 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0320,866,897 - 20,901,669 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0319,122,236 - 19,157,008 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.033,856,218 - 3,890,785 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl33,856,218 - 3,890,758 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.039,217,446 - 9,252,578 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.434,583,882 - 4,613,980 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera34,049,023 - 4,084,074 (-)NCBICelera
Cytogenetic Map3p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
acrolein  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
antirheumatic drug  (ISO)
arsenous acid  (ISO)
benzene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
enzyme inhibitor  (ISO)
fenthion  (ISO)
fluoranthene  (ISO)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
glafenine  (EXP)
glyphosate  (ISO)
indometacin  (ISO)
inulin  (ISO)
ivermectin  (ISO)
leflunomide  (ISO)
methapyrilene  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenethyl isothiocyanate  (EXP)
phenobarbital  (ISO)
potassium dichromate  (ISO)
selenium atom  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
testosterone  (ISO)
triptonide  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:11596118   PMID:17428803   PMID:19638414   PMID:21768384   PMID:22355596   PMID:22740409   PMID:22926577   PMID:25002582   PMID:25201882   PMID:27354378   PMID:28067262  
PMID:28442536   PMID:29300766  


Genomics

Comparative Map Data
Sec16a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8329,627,779 - 29,662,925 (-)NCBIGRCr8
mRatBN7.239,229,687 - 9,264,837 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl39,229,687 - 9,264,273 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx312,283,667 - 12,318,439 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0320,866,897 - 20,901,669 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0319,122,236 - 19,157,008 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.033,856,218 - 3,890,785 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl33,856,218 - 3,890,758 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.039,217,446 - 9,252,578 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.434,583,882 - 4,613,980 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera34,049,023 - 4,084,074 (-)NCBICelera
Cytogenetic Map3p13NCBI
SEC16A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389136,440,105 - 136,484,740 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9136,440,096 - 136,483,759 (-)EnsemblGRCh38hg38GRCh38
GRCh379139,334,557 - 139,378,235 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369138,454,369 - 138,497,328 (-)NCBINCBI36Build 36hg18NCBI36
Celera9109,849,015 - 109,891,964 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9108,793,635 - 108,837,485 (-)NCBIHuRef
CHM1_19139,482,991 - 139,526,945 (-)NCBICHM1_1
T2T-CHM13v2.09148,669,197 - 148,713,859 (-)NCBIT2T-CHM13v2.0
Sec16a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39226,299,443 - 26,336,138 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl226,299,443 - 26,335,228 (-)EnsemblGRCm39 Ensembl
GRCm38226,409,431 - 26,446,293 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl226,409,431 - 26,445,216 (-)EnsemblGRCm38mm10GRCm38
MGSCv37226,264,951 - 26,300,736 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36226,231,445 - 26,250,355 (-)NCBIMGSCv36mm8
Celera226,127,145 - 26,163,053 (-)NCBICelera
Cytogenetic Map2A3NCBI
cM Map218.89NCBI
Sec16a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555134,273,581 - 4,303,157 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555134,272,623 - 4,304,314 (+)NCBIChiLan1.0ChiLan1.0
SEC16A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2112,897,588 - 2,943,143 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan192,899,923 - 2,945,478 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v09107,516,556 - 107,560,930 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19136,493,957 - 136,533,672 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9136,493,957 - 136,533,655 (-)Ensemblpanpan1.1panPan2
SEC16A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1949,027,190 - 49,060,858 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl949,031,669 - 49,060,848 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha948,277,816 - 48,311,534 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0949,903,885 - 49,937,614 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,903,923 - 49,937,604 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,684,649 - 48,718,370 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,978,370 - 49,012,325 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0949,026,101 - 49,059,830 (+)NCBIUU_Cfam_GSD_1.0
Sec16a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947201,999,577 - 202,031,070 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366691,343,879 - 1,375,508 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366691,344,019 - 1,375,483 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SEC16A
(Sus scrofa - pig)		 No map positions available.
SEC16A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,718,520 - 1,763,562 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,724,838 - 1,761,941 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660583,452,828 - 3,498,315 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sec16a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247601,594,899 - 1,629,409 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247601,595,021 - 1,628,985 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sec16a
84 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:119
Count of miRNA genes:91
Interacting mature miRNAs:103
Transcripts:ENSRNOT00000064083
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358185Ept6Estrogen-induced pituitary tumorigenesis QTL 66.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
2292615Ept17Estrogen-induced pituitary tumorigenesis QTL 176.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)3653764510778823Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3865816227494778Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat

Markers in Region
RH143614  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.239,237,586 - 9,237,839 (+)MAPPERmRatBN7.2
Rnor_6.033,864,118 - 3,864,368NCBIRnor6.0
Rnor_5.039,225,346 - 9,225,596UniSTSRnor5.0
RGSC_v3.434,590,817 - 4,591,067UniSTSRGSC3.4
Celera34,056,923 - 4,057,173UniSTS
AU049181  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.239,237,476 - 9,237,744 (+)MAPPERmRatBN7.2
Rnor_6.033,864,008 - 3,864,273NCBIRnor6.0
Rnor_5.039,225,236 - 9,225,501UniSTSRnor5.0
RGSC_v3.434,590,707 - 4,590,972UniSTSRGSC3.4
Celera34,056,813 - 4,057,078UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 38 57 41 19 41 2 4 74 35 41 11 2
Low 5 6 7 6
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001276417 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233664 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006233666 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104081 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063282949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063282950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063282951 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063282952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063282953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063282954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AA964568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC129824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AI029484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BF559738 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB693657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB697736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB748595 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB769991 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB796406 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK478543 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CR754440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY309886 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV776567 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ142479 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ238789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000064083   ⟹   ENSRNOP00000060572
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl39,229,687 - 9,264,233 (-)Ensembl
Rnor_6.0 Ensembl33,856,218 - 3,890,758 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111138   ⟹   ENSRNOP00000082279
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl39,229,695 - 9,264,214 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000114026   ⟹   ENSRNOP00000079931
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl39,229,687 - 9,264,273 (-)Ensembl
RefSeq Acc Id: NM_001276417   ⟹   NP_001263346
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,319 (-)NCBI
mRatBN7.239,229,687 - 9,264,233 (-)NCBI
Rnor_6.033,856,218 - 3,890,758 (-)NCBI
Rnor_5.039,217,446 - 9,252,578 (-)NCBI
Celera34,049,023 - 4,084,074 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233662   ⟹   XP_006233724
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,374 (-)NCBI
mRatBN7.239,229,687 - 9,264,266 (-)NCBI
Rnor_6.033,856,218 - 3,890,785 (-)NCBI
Rnor_5.039,217,446 - 9,252,578 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233663   ⟹   XP_006233725
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,352 (-)NCBI
mRatBN7.239,229,687 - 9,264,266 (-)NCBI
Rnor_6.033,856,218 - 3,890,785 (-)NCBI
Rnor_5.039,217,446 - 9,252,578 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233664   ⟹   XP_006233726
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,345 (-)NCBI
mRatBN7.239,229,687 - 9,263,855 (-)NCBI
Rnor_6.033,856,218 - 3,890,429 (-)NCBI
Rnor_5.039,217,446 - 9,252,578 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006233666   ⟹   XP_006233728
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,374 (-)NCBI
mRatBN7.239,229,687 - 9,264,265 (-)NCBI
Rnor_6.033,856,218 - 3,890,784 (-)NCBI
Rnor_5.039,217,446 - 9,252,578 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039104081   ⟹   XP_038960009
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,925 (-)NCBI
mRatBN7.239,229,687 - 9,264,837 (-)NCBI
RefSeq Acc Id: XM_063282949   ⟹   XP_063139019
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,634,165 - 29,662,374 (-)NCBI
RefSeq Acc Id: XM_063282950   ⟹   XP_063139020
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,350 (-)NCBI
RefSeq Acc Id: XM_063282951   ⟹   XP_063139021
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,346 (-)NCBI
RefSeq Acc Id: XM_063282952   ⟹   XP_063139022
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,374 (-)NCBI
RefSeq Acc Id: XM_063282953   ⟹   XP_063139023
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,350 (-)NCBI
RefSeq Acc Id: XM_063282954   ⟹   XP_063139024
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8329,627,779 - 29,662,350 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001263346   ⟸   NM_001276417
- UniProtKB: D3ZN76 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233725   ⟸   XM_006233663
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZTA3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233728   ⟸   XM_006233666
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006233724   ⟸   XM_006233662
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZTA3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233726   ⟸   XM_006233664
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZTA3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000060572   ⟸   ENSRNOT00000064083
RefSeq Acc Id: XP_038960009   ⟸   XM_039104081
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZTA3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000079931   ⟸   ENSRNOT00000114026
RefSeq Acc Id: ENSRNOP00000082279   ⟸   ENSRNOT00000111138
RefSeq Acc Id: XP_063139022   ⟸   XM_063282952
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZPJ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063139023   ⟸   XM_063282953
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZPJ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063139020   ⟸   XM_063282950
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063139024   ⟸   XM_063282954
- Peptide Label: isoform X5
- UniProtKB: D3ZN76 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063139021   ⟸   XM_063282951
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063139019   ⟸   XM_063282949
- Peptide Label: isoform X2
Protein Domains
Ancestral coatomer element 1 Sec16/Sec31   Sec16 central conserved

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZN76-F1-model_v2 AlphaFold D3ZN76 1-2346 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13691907
Promoter ID:EPDNEW_R2432
Type:initiation region
Name:Sec16a_1
Description:SEC16 homolog A, endoplasmic reticulum export factor
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.033,890,760 - 3,890,820EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2322350 AgrOrtholog
BioCyc Gene G2FUF-50379 BioCyc
Ensembl Genes ENSRNOG00000019122 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064083 ENTREZGENE
  ENSRNOT00000064083.4 UniProtKB/TrEMBL
  ENSRNOT00000111138.1 UniProtKB/TrEMBL
  ENSRNOT00000114026.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.1030 UniProtKB/TrEMBL
InterPro ACE1_Sec16_Sec31 UniProtKB/TrEMBL
  Sec16 UniProtKB/TrEMBL
  Sec16_CCD UniProtKB/TrEMBL
KEGG Report rno:100360302 UniProtKB/TrEMBL
NCBI Gene 100360302 ENTREZGENE
PANTHER PROTEIN TRANSPORT PROTEIN SEC16A UniProtKB/TrEMBL
  PTHR13402 UniProtKB/TrEMBL
Pfam Sec16 UniProtKB/TrEMBL
  Sec16_C UniProtKB/TrEMBL
PhenoGen Sec16a PhenoGen
RatGTEx ENSRNOG00000019122 RatGTEx
UniProt A0A8I5ZPJ7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZTA3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZN76 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-07-30 Sec16a  SEC16 homolog A, endoplasmic reticulum export factor  Sec16a  SEC16 homolog A (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-08-06 Sec16a  SEC16 homolog A (S. cerevisiae)  LOC100360302  SEC16 homolog A-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100360302  SEC16 homolog A-like      Symbol and Name status set to provisional 70820 PROVISIONAL