Rab7a (RAB7A, member RAS oncogene family) - Rat Genome Database

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Gene: Rab7a (RAB7A, member RAS oncogene family) Rattus norvegicus
Analyze
Symbol: Rab7a
Name: RAB7A, member RAS oncogene family
RGD ID: 61908
Description: Enables GDP binding activity; GTP binding activity; and small GTPase binding activity. Involved in bone resorption. Located in alveolar lamellar body and late endosome. Is anchored component of synaptic vesicle membrane. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease type 2B. Orthologous to human RAB7A (RAB7A, member RAS oncogene family); PARTICIPATES IN autophagy pathway; interleukin-12 signaling pathway; endocytosis pathway; INTERACTS WITH 17beta-hydroxy-5alpha-androstan-3-one; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Rab7; RAB7, member RAS oncogene family; ras-related protein BRL-RAS; ras-related protein p23; ras-related protein Rab-7a
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24120,461,966 - 120,510,756 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl4120,461,963 - 120,506,889 (-)Ensembl
Rnor_6.04119,910,461 - 119,963,065 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4119,910,478 - 119,959,173 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04185,158,344 - 185,209,333 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44122,202,685 - 122,220,649 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14122,447,168 - 122,465,130 (-)NCBI
Celera4109,421,363 - 109,466,326 (-)NCBICelera
Cytogenetic Map4q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
2-methoxyethanol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
acrylamide  (ISO)
alginic acid  (ISO)
alpha-hexachlorocyclohexane  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
Brodifacoum  (EXP)
buspirone  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcium atom  (EXP)
calcium(0)  (EXP)
carbon nanotube  (ISO)
chenodeoxycholic acid  (ISO)
chloropicrin  (ISO)
cholic acid  (ISO)
ciguatoxin CTX1B  (ISO)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
diarsenic trioxide  (ISO)
dimethylarsinic acid  (EXP,ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
gentamycin  (EXP)
haloperidol  (EXP)
hydrogen peroxide  (EXP,ISO)
ivermectin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
melatonin  (EXP)
methamphetamine  (EXP)
N-acetyl-L-cysteine  (EXP)
N-hydroxy-PhIP  (EXP)
nefazodone  (EXP)
nickel atom  (ISO)
nicotine  (ISO)
paracetamol  (ISO)
phenylmercury acetate  (ISO)
piroxicam  (ISO)
resveratrol  (EXP,ISO)
SB 431542  (ISO)
sodium arsenite  (EXP)
sodium fluoride  (ISO)
taurocholic acid  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP)
thapsigargin  (EXP)
uranium atom  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bucci C, etal., Nucleic Acids Res 1988 Nov 11;16(21):9979-93.
2. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Guo Z, etal., EMBO J. 2008 Sep 17;27(18):2444-56. doi: 10.1038/emboj.2008.164. Epub 2008 Aug 28.
4. Mehrpour M, etal., Cell Res. 2010 Jul;20(7):748-62. Epub 2010 Jun 15.
5. MGD data from the GO Consortium
6. Morvan J, etal., Autophagy. 2009 Jul;5(5):676-89. Epub 2009 Jul 6.
7. NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. OMIM Disease Annotation Pipeline
9. Pavlos NJ, etal., J Neurosci. 2010 Oct 6;30(40):13441-53. doi: 10.1523/JNEUROSCI.0907-10.2010.
10. Pipeline to import KEGG annotations from KEGG into RGD
11. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
12. Rak A, etal., Cell. 2004 Jun 11;117(6):749-60.
13. RGD automated data pipeline
14. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. RGD automated import pipeline for gene-chemical interactions
16. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
17. Sun Y, etal., J Biol Chem. 2005 Sep 16;280(37):32356-61. Epub 2005 Jul 21.
18. Wasano K and Hirakawa Y, Histochemistry. 1994 Nov;102(5):329-35.
19. Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
20. Zhao H, etal., J Biol Chem 2001 Oct 19;276(42):39295-302.
Additional References at PubMed
PMID:8522602   PMID:8586647   PMID:11042173   PMID:11172003   PMID:14617358   PMID:15078902   PMID:15489334   PMID:15588329   PMID:15978772   PMID:16282324   PMID:16306406   PMID:17010938  
PMID:18272684   PMID:18419753   PMID:18504258   PMID:18656450   PMID:19056867   PMID:19509052   PMID:19531583   PMID:19956673   PMID:20458337   PMID:20849920   PMID:20943658   PMID:21151572  
PMID:21248257   PMID:21255211   PMID:21700703   PMID:22072966   PMID:22115783   PMID:22431521   PMID:22660413   PMID:23028046   PMID:23230081   PMID:23376485   PMID:23533145   PMID:23616551  
PMID:23708524   PMID:24035762   PMID:24334765   PMID:24344282   PMID:24625528   PMID:24760869   PMID:25592972   PMID:26582200   PMID:26599499   PMID:26911690   PMID:27383256   PMID:27385586  
PMID:27390154   PMID:28726776   PMID:29476059   PMID:29712939   PMID:29932881   PMID:30721447  


Genomics

Comparative Map Data
Rab7a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24120,461,966 - 120,510,756 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl4120,461,963 - 120,506,889 (-)Ensembl
Rnor_6.04119,910,461 - 119,963,065 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4119,910,478 - 119,959,173 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04185,158,344 - 185,209,333 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44122,202,685 - 122,220,649 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14122,447,168 - 122,465,130 (-)NCBI
Celera4109,421,363 - 109,466,326 (-)NCBICelera
Cytogenetic Map4q34NCBI
RAB7A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383128,726,183 - 128,814,798 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl3128,693,669 - 128,825,942 (+)EnsemblGRCh38hg38GRCh38
GRCh373128,445,026 - 128,533,641 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363129,927,669 - 130,016,331 (+)NCBINCBI36hg18NCBI36
Build 343129,927,676 - 130,016,339NCBI
Celera3126,877,121 - 126,965,892 (+)NCBI
Cytogenetic Map3q21.3NCBI
HuRef3125,832,324 - 125,921,106 (+)NCBIHuRef
CHM1_13128,408,152 - 128,496,845 (+)NCBICHM1_1
T2T-CHM13v2.03131,470,839 - 131,559,516 (+)NCBI
Rab7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39687,976,088 - 88,022,252 (-)NCBIGRCm39mm39
GRCm39 Ensembl687,976,088 - 88,022,252 (-)Ensembl
GRCm38687,999,106 - 88,045,270 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl687,999,106 - 88,045,270 (-)EnsemblGRCm38mm10GRCm38
MGSCv37687,950,429 - 87,963,684 (-)NCBIGRCm37mm9NCBIm37
MGSCv36687,964,764 - 88,010,861 (-)NCBImm8
Celera689,937,361 - 89,950,664 (-)NCBICelera
Cytogenetic Map6D1NCBI
cM Map639.13NCBI
Rab7a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542915,103,792 - 15,167,498 (-)NCBIChiLan1.0ChiLan1.0
RAB7A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13133,214,246 - 133,233,403 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v03125,784,604 - 125,873,051 (+)NCBIMhudiblu_PPA_v0panPan3
RAB7A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1202,704,716 - 2,776,518 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl202,704,752 - 2,826,636 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha202,792,411 - 2,812,258 (+)NCBI
ROS_Cfam_1.0202,724,992 - 2,797,106 (+)NCBI
ROS_Cfam_1.0 Ensembl202,725,012 - 2,798,427 (+)Ensembl
UMICH_Zoey_3.1202,496,060 - 2,515,882 (+)NCBI
UNSW_CanFamBas_1.0202,822,274 - 2,842,051 (+)NCBI
UU_Cfam_GSD_1.0202,783,313 - 2,803,191 (+)NCBI
Rab7a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494220,255,730 - 20,263,118 (-)NCBI
SpeTri2.0NW_004936798297,600 - 304,929 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAB7A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1371,777,420 - 71,886,581 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11371,777,422 - 71,886,758 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21379,450,127 - 79,456,601 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RAB7A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12252,231,481 - 52,309,276 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2252,230,835 - 52,309,306 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041114,053,255 - 114,130,507 (+)NCBIVero_WHO_p1.0
Rab7a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462504256,517 - 112,612 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_00462504256,509 - 112,519 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
Rab7-ps1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24120,462,698 - 120,462,929 (+)MAPPERmRatBN7.2
mRatBN7.2496,474,285 - 96,474,514 (+)MAPPERmRatBN7.2
Rnor_6.0498,100,457 - 98,100,685NCBIRnor6.0
Rnor_6.04119,911,199 - 119,911,429NCBIRnor6.0
Rnor_5.04185,159,082 - 185,159,312UniSTSRnor5.0
Rnor_5.04162,886,071 - 162,886,299UniSTSRnor5.0
RGSC_v3.44122,203,418 - 122,203,648UniSTSRGSC3.4
RGSC_v3.4496,977,370 - 96,977,598UniSTSRGSC3.4
Celera491,166,331 - 91,166,559UniSTS
Celera4109,422,096 - 109,422,326UniSTS
Cytogenetic Map4q34UniSTS
Cytogenetic Map4q31UniSTS
RH131958  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24120,507,584 - 120,507,777 (+)MAPPERmRatBN7.2
Rnor_6.04119,959,884 - 119,960,076NCBIRnor6.0
Rnor_5.04185,206,546 - 185,206,738UniSTSRnor5.0
Celera4109,467,037 - 109,467,229UniSTS
RH 3.4 Map4717.11UniSTS
Cytogenetic Map4q34UniSTS
Rab7  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24120,506,727 - 120,506,964 (+)MAPPERmRatBN7.2
Rnor_6.04119,959,027 - 119,959,263NCBIRnor6.0
Rnor_5.04185,205,689 - 185,205,925UniSTSRnor5.0
Celera4109,466,180 - 109,466,416UniSTS
Cytogenetic Map4q34UniSTS
PMC124275P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24120,462,854 - 120,463,324 (+)MAPPERmRatBN7.2
Rnor_6.04119,911,355 - 119,911,824NCBIRnor6.0
Rnor_5.04185,159,238 - 185,159,707UniSTSRnor5.0
RGSC_v3.44122,203,574 - 122,204,043UniSTSRGSC3.4
Celera4109,422,252 - 109,422,721UniSTS
Cytogenetic Map4q34UniSTS
RAB7A  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24120,467,340 - 120,468,086 (+)MAPPERmRatBN7.2
Rnor_6.04119,915,841 - 119,916,586NCBIRnor6.0
Rnor_5.04185,163,724 - 185,164,469UniSTSRnor5.0
RGSC_v3.44122,208,061 - 122,208,806UniSTSRGSC3.4
Celera4109,426,737 - 109,427,482UniSTS
Cytogenetic Map4q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)462277855128289560Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470362013132642728Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)473169846132642728Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)478878504123878504Rat
738015Pia9Pristane induced arthritis QTL 94.50.048joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)480694870125694870Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)481192555126192555Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482798864152731274Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)484728680129854654Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
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
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)486730991131730991Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)487327165132327165Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)487327165132327165Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)490850165135850165Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)495174120140174120Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4103194656148194656Rat
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
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106649412151649412Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4106805662151805662Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109827074154827074Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109827074154827074Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
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
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
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
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
1331802Srn5Serum renin concentration QTL 53.045renin activity (VT:0005581)plasma renin activity level (CMO:0000116)4119428175157578333Rat
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
70201Gcr1Gastric cancer resistance QTL 12.7stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)4120260281147278687Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:462
Count of miRNA genes:226
Interacting mature miRNAs:277
Transcripts:ENSRNOT00000016432
Prediction methods:Microtar, Miranda, 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.


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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016432   ⟹   ENSRNOP00000016432
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4120,461,963 - 120,506,850 (-)Ensembl
Rnor_6.0 Ensembl4119,910,478 - 119,959,173 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000077624   ⟹   ENSRNOP00000074838
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4120,466,713 - 120,476,292 (-)Ensembl
Rnor_6.0 Ensembl4119,913,640 - 119,927,705 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108669   ⟹   ENSRNOP00000080334
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4120,461,963 - 120,476,292 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115697   ⟹   ENSRNOP00000094834
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4120,463,206 - 120,506,889 (-)Ensembl
RefSeq Acc Id: NM_023950   ⟹   NP_076440
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24120,461,966 - 120,506,874 (-)NCBI
Rnor_6.04119,910,466 - 119,959,173 (-)NCBI
Rnor_5.04185,158,344 - 185,209,333 (-)NCBI
RGSC_v3.44122,202,685 - 122,220,649 (-)RGD
Celera4109,421,363 - 109,466,326 (-)RGD
Sequence:
RefSeq Acc Id: XM_006236849   ⟹   XP_006236911
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24120,462,336 - 120,510,756 (-)NCBI
Rnor_6.04119,910,461 - 119,963,065 (-)NCBI
Rnor_5.04185,158,344 - 185,209,333 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_076440   ⟸   NM_023950
- UniProtKB: P09527 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006236911   ⟸   XM_006236849
- Peptide Label: isoform X1
- UniProtKB: P09527 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074838   ⟸   ENSRNOT00000077624
RefSeq Acc Id: ENSRNOP00000016432   ⟸   ENSRNOT00000016432
RefSeq Acc Id: ENSRNOP00000094834   ⟸   ENSRNOT00000115697
RefSeq Acc Id: ENSRNOP00000080334   ⟸   ENSRNOT00000108669

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P09527-F1-model_v2 AlphaFold P09527 1-207 view protein structure

Transcriptome

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

Promoters
RGD ID:13693226
Promoter ID:EPDNEW_R3751
Type:initiation region
Name:Rab7a_1
Description:RAB7A, member RAS oncogene family
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_6.04119,959,176 - 119,959,236EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61908 AgrOrtholog
BioCyc Gene G2FUF-43835 BioCyc
Ensembl Genes ENSRNOG00000012247 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016432 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000074838 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016432 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000077624 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7098657 IMAGE-MGC_LOAD
InterPro P-loop_NTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Small_GTP-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Small_GTPase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29448 UniProtKB/Swiss-Prot
MGC_CLONE MGC:91396 IMAGE-MGC_LOAD
NCBI Gene 29448 ENTREZGENE
Pfam Ras UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rab7a PhenoGen
PROSITE RAB UniProtKB/Swiss-Prot
  RAS UniProtKB/TrEMBL
SMART RHO UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGRFAMs small_GTP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K930_RAT UniProtKB/TrEMBL
  P09527 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q4AEF6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-24 Rab7a  RAB7A, member RAS oncogene family  Rab7  RAB7, member RAS oncogene family  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Rab7  RAB7, member RAS oncogene family      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference