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) Rattus norvegicus
Analyze
Symbol: Sec13
Name: SEC13 homolog, nuclear pore and COPII coat complex component
RGD ID: 1359555
Description: Predicted to enable identical protein binding activity and structural molecule activity. Acts upstream of or within endoplasmic reticulum to Golgi vesicle-mediated transport. Part of nuclear pore. Orthologous to human SEC13 (SEC13 homolog, nuclear pore and COPII coat complex component); PARTICIPATES IN mRNA nuclear export pathway; Endoplasmic Reticulum-associated degradation pathway; RNA transport pathway; INTERACTS WITH 17alpha-ethynylestradiol; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: GATOR complex protein SEC13; GATOR2 complex protein SEC13; MGC105923; SEC13 homolog; SEC13 homolog (S. cerevisiae); SEC13 homolog, nuclear pore and COPII coating complex component; SEC13-like 1; SEC13-like 1 (S. cerevisiae); SEC13-like protein 1; Sec13l1
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
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Regulation of mRNA trafficking by nuclear pore complexes. Bonnet A and Palancade B, Genes (Basel). 2014 Sep 2;5(3):767-91. doi: 10.3390/genes5030767.
2. Sec13 shuttles between the nucleus and the cytoplasm and stably interacts with Nup96 at the nuclear pore complex. Enninga J, etal., Mol Cell Biol 2003 Oct;23(20):7271-84.
3. A conserved biogenesis pathway for nucleoporins: proteolytic processing of a 186-kilodalton precursor generates Nup98 and the novel nucleoporin, Nup96. Fontoura BM, etal., J Cell Biol. 1999 Mar 22;144(6):1097-112.
4. 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.
5. Mammalian Bet3 functions as a cytosolic factor participating in transport from the ER to the Golgi apparatus. Loh E, etal., J Cell Sci. 2005 Mar 15;118(Pt 6):1209-22. Epub 2005 Feb 22.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. GOA pipeline RGD automated data pipeline
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Comprehensive gene review and curation RGD comprehensive gene curation
11. Human SEC13Rp functions in yeast and is located on transport vesicles budding from the endoplasmic reticulum. Shaywitz DA, etal., J Cell Biol 1995 Mar;128(5):769-77.
12. Phosphorylation of Sar1b protein releases liver fatty acid-binding protein from multiprotein complex in intestinal cytosol enabling it to bind to endoplasmic reticulum (ER) and bud the pre-chylomicron transport vesicle. Siddiqi S and Mansbach CM 2nd, J Biol Chem. 2012 Mar 23;287(13):10178-88. doi: 10.1074/jbc.M111.327247. Epub 2012 Feb 1.
13. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
14. Molecular characterization of a novel human gene, SEC13R, related to the yeast secretory pathway gene SEC13, and mapping to a conserved linkage group on human chromosome 3p24-p25 and mouse chromosome 6. Swaroop A, etal., Hum Mol Genet 1994 Aug;3(8):1281-6.
Additional References at PubMed
PMID:15146057   PMID:15489334   PMID:17360435   PMID:17499046   PMID:18160040   PMID:18843296   PMID:19056867   PMID:23723238   PMID:27194810   PMID:27354378   PMID:28199306   PMID:30053369  


Genomics

Comparative Map Data
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
(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
(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
(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

Variants

.
Variants in Sec13
31 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:30
Count of miRNA genes:29
Interacting mature miRNAs:30
Transcripts:ENSRNOT00000014377
Prediction methods: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
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106649412151649412Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109827074154827074Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482798864152731274Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
70201Gcr1Gastric cancer resistance QTL 12.7stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)4120260281147278687Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
2302049Pia32Pristane induced arthritis QTL 325.10.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)4105789505150789505Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4119428175157578333Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109827074154827074Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4106805662151805662Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
2293840Kiddil9Kidney dilation QTL 92.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)4120926564148090731Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)485253748150276390Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4103194656148194656Rat
12798527Anxrr58Anxiety related response QTL 584.110.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4119463257147278687Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat

Markers in Region
RH127538  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.04208,982,790 - 208,984,248NCBIRnor5.0
Rnor_5.0181,169,395 - 1,169,614NCBIRnor5.0
Rnor_5.01940,142,919 - 40,143,138NCBIRnor5.0
RGSC_v3.4181,240,492 - 1,240,710UniSTSRGSC3.4
RGSC_v3.44149,637,264 - 149,638,721UniSTSRGSC3.4
Celera18860,785 - 861,003UniSTS
Celera4135,432,622 - 135,434,079UniSTS
RH 3.4 Map1829.8UniSTS
Cytogenetic Map18p13UniSTS
Cytogenetic Map4q42UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000014377   ⟹   ENSRNOP00000014377
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4146,877,755 - 146,891,173 (-)Ensembl
Rnor_6.0 Ensembl4145,686,193 - 145,699,577 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106299   ⟹   ENSRNOP00000091682
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4146,877,743 - 146,891,150 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000114125   ⟹   ENSRNOP00000077650
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4146,875,524 - 146,891,123 (-)Ensembl
RefSeq Acc Id: NM_001006978   ⟹   NP_001006979
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84148,433,344 - 148,446,735 (-)NCBI
mRatBN7.24146,877,739 - 146,891,130 (-)NCBI
Rnor_6.04145,686,186 - 145,699,577 (-)NCBI
Rnor_5.04208,982,585 - 208,995,976 (-)NCBI
RGSC_v3.44149,637,058 - 149,650,449 (-)RGD
Celera4135,432,416 - 135,445,807 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001006979 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH84705 (Get FASTA)   NCBI Sequence Viewer  
  EDL91559 (Get FASTA)   NCBI Sequence Viewer  
  EDL91560 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014377.4
  ENSRNOP00000077650.1
  ENSRNOP00000091682.1
GenBank Protein Q5XFW8 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001006979   ⟸   NM_001006978
- UniProtKB: Q5XFW8 (UniProtKB/Swiss-Prot),   A6IBU1 (UniProtKB/TrEMBL),   A0A8I6ATA8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000014377   ⟸   ENSRNOT00000014377
Ensembl Acc Id: ENSRNOP00000077650   ⟸   ENSRNOT00000114125
Ensembl Acc Id: ENSRNOP00000091682   ⟸   ENSRNOT00000106299

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5XFW8-F1-model_v2 AlphaFold Q5XFW8 1-322 view protein structure

Transcriptome

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

Promoters
RGD ID:13693314
Promoter ID:EPDNEW_R3838
Type:multiple initiation site
Name:Sec13_1
Description:SEC13 homolog, nuclear pore and COPII coat complex component
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_6.04145,699,597 - 145,699,657EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359555 AgrOrtholog
BioCyc Gene G2FUF-43363 BioCyc
Ensembl Genes ENSRNOG00000010628 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014377.5 UniProtKB/TrEMBL
  ENSRNOT00000106299.1 UniProtKB/TrEMBL
  ENSRNOT00000114125.1 UniProtKB/Swiss-Prot
Gene3D-CATH 2.130.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7301091 IMAGE-MGC_LOAD
InterPro Sec13/Seh1_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:297522 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105923 IMAGE-MGC_LOAD
NCBI Gene 297522 ENTREZGENE
PANTHER PTHR11024 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR11024:SF2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam WD40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sec13 PhenoGen
PROSITE WD_REPEATS_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD_REPEATS_REGION UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010628 RatGTEx
SMART WD40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50978 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6ATA8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2Q6Q3_RAT UniProtKB/TrEMBL
  A6IBU1 ENTREZGENE, UniProtKB/TrEMBL
  Q5XFW8 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-13 Sec13  SEC13 homolog, nuclear pore and COPII coat complex component  Sec13  SEC13 homolog, nuclear pore and COPII coating complex component  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-30 Sec13  SEC13 homolog, nuclear pore and COPII coating complex component  Sec13  SEC13 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Sec13  SEC13 homolog (S. cerevisiae)  Sec13l1  SEC13-like 1 (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Sec13l1  SEC13-like 1 (S. cerevisiae)    SEC13-like 1  Name updated 1299863 APPROVED
2005-07-29 Sec13l1  SEC13-like 1      Symbol and Name status set to provisional 70820 PROVISIONAL