Rapgef6 (Rap guanine nucleotide exchange factor 6) - Rat Genome Database

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Gene: Rapgef6 (Rap guanine nucleotide exchange factor 6) Rattus norvegicus
Analyze
Symbol: Rapgef6
Name: Rap guanine nucleotide exchange factor 6
RGD ID: 1307645
Description: Predicted to enable several functions, including GTP-dependent protein binding activity; guanyl-nucleotide exchange factor activity; and phosphatidic acid binding activity. Predicted to be involved in Ras protein signal transduction; microvillus assembly; and protein localization to plasma membrane. Predicted to be located in centrosome and cytosol. Predicted to be active in apical plasma membrane and endocytic vesicle. Orthologous to human RAPGEF6 (Rap guanine nucleotide exchange factor 6); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC303141; Rap guanine nucleotide exchange factor (GEF) 6
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
GRCr81039,156,573 - 39,324,947 (+)NCBIGRCr8
mRatBN7.21038,655,854 - 38,824,227 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1038,655,867 - 38,823,211 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1043,341,598 - 43,507,466 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01042,831,675 - 42,997,544 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01038,335,387 - 38,501,259 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01039,875,322 - 40,039,929 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1039,875,371 - 40,039,929 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01039,648,090 - 39,812,677 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41039,935,952 - 40,101,623 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11039,949,735 - 40,131,150 (+)NCBI
Celera1037,996,384 - 38,160,561 (+)NCBICelera
Cytogenetic Map10q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
apical plasma membrane  (IBA,ISO)
centrosome  (IEA,ISO)
cytosol  (ISO)
endocytic vesicle  (IBA,ISO)
plasma membrane  (IBA,ISO)

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11524421   PMID:12477932   PMID:22797597   PMID:23885123  


Genomics

Comparative Map Data
Rapgef6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81039,156,573 - 39,324,947 (+)NCBIGRCr8
mRatBN7.21038,655,854 - 38,824,227 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1038,655,867 - 38,823,211 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1043,341,598 - 43,507,466 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01042,831,675 - 42,997,544 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01038,335,387 - 38,501,259 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01039,875,322 - 40,039,929 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1039,875,371 - 40,039,929 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01039,648,090 - 39,812,677 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41039,935,952 - 40,101,623 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11039,949,735 - 40,131,150 (+)NCBI
Celera1037,996,384 - 38,160,561 (+)NCBICelera
Cytogenetic Map10q22NCBI
RAPGEF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385131,423,921 - 131,635,229 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5131,423,921 - 131,635,231 (-)EnsemblGRCh38hg38GRCh38
GRCh375130,759,614 - 130,970,922 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365130,789,500 - 130,998,828 (-)NCBINCBI36Build 36hg18NCBI36
Build 345130,789,502 - 130,998,828NCBI
Celera5126,889,939 - 127,101,211 (-)NCBICelera
Cytogenetic Map5q31.1NCBI
HuRef5125,950,778 - 126,162,839 (-)NCBIHuRef
CHM1_15130,192,482 - 130,403,787 (-)NCBICHM1_1
T2T-CHM13v2.05131,943,517 - 132,155,185 (-)NCBIT2T-CHM13v2.0
Rapgef6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391154,413,630 - 54,590,112 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1154,413,673 - 54,590,111 (+)EnsemblGRCm39 Ensembl
GRCm381154,522,809 - 54,699,286 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1154,522,847 - 54,699,285 (+)EnsemblGRCm38mm10GRCm38
MGSCv371154,336,349 - 54,512,787 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361154,366,270 - 54,542,708 (+)NCBIMGSCv36mm8
Celera1159,110,416 - 59,286,532 (+)NCBICelera
Cytogenetic Map11B1.3NCBI
cM Map1132.13NCBI
Rapgef6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554082,902,530 - 3,109,273 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554082,902,530 - 3,109,273 (-)NCBIChiLan1.0ChiLan1.0
RAPGEF6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24126,748,041 - 126,963,393 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15124,887,606 - 125,099,354 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05126,852,474 - 127,064,421 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15133,018,249 - 133,228,855 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5133,018,249 - 133,228,851 (-)Ensemblpanpan1.1panPan2
RAPGEF6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11119,775,874 - 19,973,784 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1118,572,675 - 18,769,686 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01120,553,837 - 20,751,119 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1120,555,931 - 20,751,086 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11119,281,977 - 19,478,740 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01119,128,865 - 19,326,348 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01119,727,794 - 19,938,614 (-)NCBIUU_Cfam_GSD_1.0
Rapgef6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213116,431,902 - 116,642,432 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366473,434,577 - 3,647,456 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366473,434,409 - 3,647,116 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAPGEF6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl2133,708,266 - 133,951,433 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.12133,708,265 - 133,951,433 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22139,027,117 - 139,199,596 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RAPGEF6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12334,266,842 - 34,474,439 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2334,266,368 - 34,474,432 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603443,492,385 - 43,699,735 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rapgef6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473340,402,318 - 40,609,234 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473340,403,340 - 40,609,104 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rapgef6
639 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:253
Count of miRNA genes:168
Interacting mature miRNAs:199
Transcripts:ENSRNOT00000013481
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102887565052200160Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103449055945579777Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103539226751793994Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat

Markers in Region
AI233944  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21038,689,905 - 38,691,001 (+)MAPPERmRatBN7.2
Rnor_6.01039,907,471 - 39,908,566NCBIRnor6.0
Rnor_5.01039,680,219 - 39,681,314UniSTSRnor5.0
RGSC_v3.41039,969,239 - 39,970,334UniSTSRGSC3.4
Celera1038,029,543 - 38,030,638UniSTS
RH 3.4 Map10405.3UniSTS
Cytogenetic Map10q22UniSTS
AI172313  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21038,650,382 - 38,650,563 (+)MAPPERmRatBN7.2
Rnor_6.01039,869,747 - 39,869,927NCBIRnor6.0
Rnor_5.01039,642,495 - 39,642,675UniSTSRnor5.0
RGSC_v3.41039,930,440 - 39,930,620UniSTSRGSC3.4
Celera1037,990,872 - 37,991,052UniSTS
RH 3.4 Map10405.1UniSTS
Cytogenetic Map10q22UniSTS
BQ210088  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21038,567,020 - 38,567,220 (+)MAPPERmRatBN7.2
Rnor_6.01039,785,979 - 39,786,178NCBIRnor6.0
Rnor_5.01039,559,043 - 39,559,242UniSTSRnor5.0
RGSC_v3.41039,847,269 - 39,847,468UniSTSRGSC3.4
Celera1037,907,534 - 37,907,733UniSTS
RH 3.4 Map10403.8UniSTS
Cytogenetic Map10q22UniSTS


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 2 6 31 15 19 15 1 1 68 26 36 11 1
Low 1 37 26 26 26 7 10 6 9 5 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001107003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006246280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597260 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597261 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017597262 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085935 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268981 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001840077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_594661 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_594662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC105830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000013481   ⟹   ENSRNOP00000013481
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1038,655,895 - 38,822,079 (+)Ensembl
Rnor_6.0 Ensembl1039,875,371 - 40,039,929 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000099767   ⟹   ENSRNOP00000090336
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1038,655,867 - 38,823,211 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000102938   ⟹   ENSRNOP00000078181
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1038,655,867 - 38,820,302 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109018   ⟹   ENSRNOP00000081855
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1038,724,023 - 38,822,079 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109709   ⟹   ENSRNOP00000096908
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1038,655,895 - 38,822,079 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000110844   ⟹   ENSRNOP00000090946
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1038,655,867 - 38,823,211 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113485   ⟹   ENSRNOP00000094611
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1038,655,889 - 38,822,079 (+)Ensembl
RefSeq Acc Id: NM_001107003   ⟹   NP_001100473
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,623 - 39,322,799 (+)NCBI
mRatBN7.21038,655,895 - 38,822,079 (+)NCBI
Rnor_6.01039,875,371 - 40,039,929 (+)NCBI
Rnor_5.01039,648,090 - 39,812,677 (+)NCBI
RGSC_v3.41039,935,952 - 40,101,623 (+)RGD
Celera1037,996,384 - 38,160,561 (+)RGD
Sequence:
RefSeq Acc Id: XM_006246277   ⟹   XP_006246339
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,324,947 (+)NCBI
mRatBN7.21038,655,859 - 38,824,227 (+)NCBI
Rnor_6.01039,875,323 - 40,039,668 (+)NCBI
Rnor_5.01039,648,090 - 39,812,677 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246278   ⟹   XP_006246340
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,324,947 (+)NCBI
mRatBN7.21038,655,859 - 38,824,227 (+)NCBI
Rnor_6.01039,875,323 - 40,039,668 (+)NCBI
Rnor_5.01039,648,090 - 39,812,677 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246279   ⟹   XP_006246341
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,324,947 (+)NCBI
mRatBN7.21038,656,056 - 38,824,227 (+)NCBI
Rnor_6.01039,875,323 - 40,039,668 (+)NCBI
Rnor_5.01039,648,090 - 39,812,677 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006246280   ⟹   XP_006246342
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,324,947 (+)NCBI
mRatBN7.21038,656,056 - 38,821,065 (+)NCBI
Rnor_6.01039,875,323 - 40,039,668 (+)NCBI
Rnor_5.01039,648,090 - 39,812,677 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597259   ⟹   XP_017452748
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,324,947 (+)NCBI
mRatBN7.21038,655,858 - 38,824,227 (+)NCBI
Rnor_6.01039,875,322 - 40,039,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597260   ⟹   XP_017452749
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,178,236 - 39,324,947 (+)NCBI
mRatBN7.21038,677,510 - 38,824,227 (+)NCBI
Rnor_6.01039,896,754 - 40,039,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597261   ⟹   XP_017452750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,217,339 - 39,324,947 (+)NCBI
mRatBN7.21038,718,260 - 38,824,227 (+)NCBI
Rnor_6.01039,941,922 - 40,039,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597262   ⟹   XP_017452751
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,217,298 - 39,324,947 (+)NCBI
mRatBN7.21038,716,570 - 38,824,227 (+)NCBI
Rnor_6.01039,934,785 - 40,039,668 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039085933   ⟹   XP_038941861
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,217,340 - 39,324,947 (+)NCBI
mRatBN7.21038,724,932 - 38,824,227 (+)NCBI
RefSeq Acc Id: XM_039085934   ⟹   XP_038941862
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,314,131 (+)NCBI
mRatBN7.21038,655,854 - 38,813,410 (+)NCBI
RefSeq Acc Id: XM_039085935   ⟹   XP_038941863
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,314,131 (+)NCBI
mRatBN7.21038,656,056 - 38,813,174 (+)NCBI
RefSeq Acc Id: XM_063268981   ⟹   XP_063125051
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,324,947 (+)NCBI
RefSeq Acc Id: XR_001840077
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81039,156,573 - 39,316,261 (+)NCBI
mRatBN7.21038,655,854 - 38,815,536 (+)NCBI
Rnor_6.01039,875,322 - 40,033,323 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001100473   ⟸   NM_001107003
- UniProtKB: A6HEI1 (UniProtKB/TrEMBL),   A0A8I5YCN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246341   ⟸   XM_006246279
- Peptide Label: isoform X5
- UniProtKB: A0A8I5YCN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246340   ⟸   XM_006246278
- Peptide Label: isoform X3
- UniProtKB: D3ZTL8 (UniProtKB/TrEMBL),   A0A8I5YCN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246339   ⟸   XM_006246277
- Peptide Label: isoform X2
- UniProtKB: A0A8I6GLT7 (UniProtKB/TrEMBL),   A0A8I5YCN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006246342   ⟸   XM_006246280
- Peptide Label: isoform X6
- UniProtKB: A0A8I5YCN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452748   ⟸   XM_017597259
- Peptide Label: isoform X1
- UniProtKB: A0A8I5YCN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452749   ⟸   XM_017597260
- Peptide Label: isoform X4
- UniProtKB: A0A8I6AM01 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452751   ⟸   XM_017597262
- Peptide Label: isoform X10
- UniProtKB: A0A8I5ZU25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452750   ⟸   XM_017597261
- Peptide Label: isoform X8
- UniProtKB: A0A8I5ZU25 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013481   ⟸   ENSRNOT00000013481
RefSeq Acc Id: XP_038941862   ⟸   XM_039085934
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038941863   ⟸   XM_039085935
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038941861   ⟸   XM_039085933
- Peptide Label: isoform X9
- UniProtKB: A0A8I5ZU25 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000078181   ⟸   ENSRNOT00000102938
RefSeq Acc Id: ENSRNOP00000090946   ⟸   ENSRNOT00000110844
RefSeq Acc Id: ENSRNOP00000081855   ⟸   ENSRNOT00000109018
RefSeq Acc Id: ENSRNOP00000096908   ⟸   ENSRNOT00000109709
RefSeq Acc Id: ENSRNOP00000090336   ⟸   ENSRNOT00000099767
RefSeq Acc Id: ENSRNOP00000094611   ⟸   ENSRNOT00000113485
RefSeq Acc Id: XP_063125051   ⟸   XM_063268981
- Peptide Label: isoform X7
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZTL8-F1-model_v2 AlphaFold D3ZTL8 1-1606 view protein structure

Transcriptome

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

Promoters
RGD ID:13697188
Promoter ID:EPDNEW_R7713
Type:initiation region
Name:Rapgef6_1
Description:Rap guanine nucleotide exchange factor 6
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_6.01039,875,371 - 39,875,431EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307645 AgrOrtholog
BioCyc Gene G2FUF-25105 BioCyc
Ensembl Genes ENSRNOG00000009995 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013481.6 UniProtKB/TrEMBL
  ENSRNOT00000099767.1 UniProtKB/TrEMBL
  ENSRNOT00000102938.1 UniProtKB/TrEMBL
  ENSRNOT00000109018.1 UniProtKB/TrEMBL
  ENSRNOT00000109709.1 UniProtKB/TrEMBL
  ENSRNOT00000110844.1 UniProtKB/TrEMBL
  ENSRNOT00000113485 ENTREZGENE
  ENSRNOT00000113485.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.840.10 UniProtKB/TrEMBL
  2.30.42.10 UniProtKB/TrEMBL
  2.60.120.10 UniProtKB/TrEMBL
  Son of sevenless (SoS) protein Chain: S domain 1 UniProtKB/TrEMBL
InterPro cNMP-bd UniProtKB/TrEMBL
  cNMP-bd-like UniProtKB/TrEMBL
  PDZ/DHR/GLGF UniProtKB/TrEMBL
  PDZ_sf UniProtKB/TrEMBL
  Ras-assoc UniProtKB/TrEMBL
  Ras-like_Gua-exchang_fac_N UniProtKB/TrEMBL
  Ras_GEF_dom UniProtKB/TrEMBL
  RASGEF_cat_dom_sf UniProtKB/TrEMBL
  RasGRF_CDC25 UniProtKB/TrEMBL
  RmlC-like_jellyroll UniProtKB/TrEMBL
  Ubiquitin-rel_dom UniProtKB/TrEMBL
KEGG Report rno:303141 UniProtKB/TrEMBL
NCBI Gene 303141 ENTREZGENE
PANTHER CYTOSKELETON-ASSOCIATED PROTEIN 4 UniProtKB/TrEMBL
  RAP GUANINE NUCLEOTIDE EXCHANGE FACTOR 6 UniProtKB/TrEMBL
Pfam cNMP_binding UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  PF00788 UniProtKB/TrEMBL
  RasGEF UniProtKB/TrEMBL
  RasGEF_N UniProtKB/TrEMBL
PhenoGen Rapgef6 PhenoGen
PROSITE CNMP_BINDING_3 UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  PS50200 UniProtKB/TrEMBL
  RASGEF_CAT UniProtKB/TrEMBL
  RASGEF_NTER UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009995 RatGTEx
SMART cNMP UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  RasGEF UniProtKB/TrEMBL
  RasGEFN UniProtKB/TrEMBL
  SM00314 UniProtKB/TrEMBL
Superfamily-SCOP cNMP_binding UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  Ras_GEF UniProtKB/TrEMBL
  SSF54236 UniProtKB/TrEMBL
UniProt A0A8I5YCN5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZU25 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ADK8_RAT UniProtKB/TrEMBL
  A0A8I6AM01 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GIT4_RAT UniProtKB/TrEMBL
  A0A8I6GLT7 ENTREZGENE, UniProtKB/TrEMBL
  A6HEI1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZTL8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-20 Rapgef6  Rap guanine nucleotide exchange factor 6  Rapgef6  Rap guanine nucleotide exchange factor (GEF) 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Rapgef6  Rap guanine nucleotide exchange factor (GEF) 6   Rapgef6_predicted  Rap guanine nucleotide exchange factor (GEF) 6 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Rapgef6_predicted  Rap guanine nucleotide exchange factor (GEF) 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED