RAPGEF3 (Rap guanine nucleotide exchange factor 3) - Rat Genome Database

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Pathways
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Gene: RAPGEF3 (Rap guanine nucleotide exchange factor 3) Canis lupus familiaris
Analyze
Symbol: RAPGEF3
Name: Rap guanine nucleotide exchange factor 3
RGD ID: 12255827
Description: ENCODES a protein that exhibits cAMP binding (ortholog); transmembrane transporter binding (ortholog); INVOLVED IN artery development (ortholog); cellular response to L-dopa (ortholog); cellular response to organic cyclic compound (ortholog); PARTICIPATES IN adenosine signaling pathway; ASSOCIATED WITH acute kidney failure (ortholog); amyloidosis (ortholog); Arterial Injury (ortholog); FOUND IN apical part of cell (ortholog); axon terminus (ortholog); basal plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: exchange protein directly activated by cAMP 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1276,993,452 - 7,030,372 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl276,993,452 - 7,017,316 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2739,291,724 - 39,314,353 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0277,060,331 - 7,082,948 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl277,060,331 - 7,082,947 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1276,997,147 - 7,019,732 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0277,032,603 - 7,055,256 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02739,580,125 - 39,602,733 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
artery development  (ISO)
associative learning  (IEA)
cellular response to cAMP  (IEA)
cellular response to L-dopa  (ISO)
cellular response to organic cyclic compound  (ISO)
cellular response to transforming growth factor beta stimulus  (ISO)
cellular response to xenobiotic stimulus  (ISO)
dorsal root ganglion development  (ISO)
establishment of endothelial barrier  (IEA)
immune response  (IEA)
intracellular signal transduction  (IEA)
liver regeneration  (ISO)
negative regulation of cardiac muscle cell apoptotic process  (ISO)
negative regulation of collagen biosynthetic process  (ISO)
negative regulation of syncytium formation by plasma membrane fusion  (IEA)
positive regulation of angiogenesis  (IEA)
positive regulation of calcium ion transmembrane transport  (ISO)
positive regulation of cell size  (ISO)
positive regulation of GTP binding  (ISO)
positive regulation of potassium:proton exchanging ATPase activity  (ISO)
positive regulation of protein export from nucleus  (IEA)
positive regulation of protein phosphorylation  (ISO)
positive regulation of smooth muscle cell migration  (ISO)
positive regulation of stress fiber assembly  (IEA)
positive regulation of syncytium formation by plasma membrane fusion  (IEA)
positive regulation of transcription by RNA polymerase II  (ISO)
Rap protein signal transduction  (IEA)
Ras protein signal transduction  (IEA)
regulation of actin cytoskeleton organization  (IEA,ISO)
regulation of angiogenesis  (IEA)
regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  (IEA)
response to nicotine  (ISO)
small GTPase-mediated signal transduction  (IEA)
spinal cord development  (ISO)
vesicle-mediated transport  (IEA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:17584967   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
RAPGEF3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1276,993,452 - 7,030,372 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl276,993,452 - 7,017,316 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2739,291,724 - 39,314,353 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0277,060,331 - 7,082,948 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl277,060,331 - 7,082,947 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1276,997,147 - 7,019,732 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0277,032,603 - 7,055,256 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02739,580,125 - 39,602,733 (-)NCBIUU_Cfam_GSD_1.0
RAPGEF3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381247,734,363 - 47,758,880 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1247,734,363 - 47,771,040 (-)EnsemblGRCh38hg38GRCh38
GRCh371248,128,146 - 48,152,663 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361246,417,293 - 46,438,952 (-)NCBINCBI36Build 36hg18NCBI36
Build 341246,417,293 - 46,438,822NCBI
Celera1246,925,923 - 46,950,362 (-)NCBICelera
Cytogenetic Map12q13.11NCBI
HuRef1245,159,564 - 45,184,005 (-)NCBIHuRef
CHM1_11248,094,358 - 48,118,798 (-)NCBICHM1_1
T2T-CHM13v2.01247,695,675 - 47,720,196 (-)NCBIT2T-CHM13v2.0
Rapgef3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391597,637,886 - 97,666,300 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1597,642,651 - 97,665,853 (-)EnsemblGRCm39 Ensembl
GRCm381597,744,770 - 97,768,419 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1597,744,770 - 97,767,972 (-)EnsemblGRCm38mm10GRCm38
MGSCv371597,575,201 - 97,598,097 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361597,572,987 - 97,595,706 (-)NCBIMGSCv36mm8
Celera1599,871,753 - 99,894,632 (-)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1553.74NCBI
Rapgef3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87130,754,883 - 130,777,303 (-)NCBIGRCr8
mRatBN7.27128,875,772 - 128,898,203 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7128,875,773 - 128,898,521 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7130,672,963 - 130,694,833 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07132,898,495 - 132,920,365 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07132,810,963 - 132,832,833 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07139,232,263 - 139,254,668 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7139,232,251 - 139,254,551 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07139,423,916 - 139,445,945 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47136,452,945 - 136,474,659 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17136,529,382 - 136,551,096 (-)NCBI
Celera7125,367,430 - 125,389,118 (-)NCBICelera
Cytogenetic Map7q36NCBI
Rapgef3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555006,655,056 - 6,674,311 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555006,655,056 - 6,674,311 (-)NCBIChiLan1.0ChiLan1.0
RAPGEF3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21046,409,026 - 46,433,820 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11246,405,818 - 46,430,578 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01240,974,756 - 40,999,471 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11241,836,354 - 41,873,252 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1241,848,785 - 41,873,252 (+)Ensemblpanpan1.1panPan2
LOC101973720
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494567,505,399 - 67,557,201 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365125,608,659 - 5,627,513 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0 EnsemblNW_0049365125,636,758 - 5,659,300 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365125,636,197 - 5,659,606 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAPGEF3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl578,101,299 - 78,134,105 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1578,101,286 - 78,134,150 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RAPGEF3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11143,954,517 - 43,979,068 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1143,957,425 - 43,978,047 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037202,402,390 - 202,425,041 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rapgef3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248164,496,856 - 4,519,911 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248164,496,848 - 4,519,782 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in RAPGEF3
757 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 4 5 16 6 6 1 12 10 6
Low 1 6 6 6 5 3
Below cutoff 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000014611   ⟹   ENSCAFP00000013515
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl276,993,452 - 7,015,741 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000039555   ⟹   ENSCAFP00000035426
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl276,993,452 - 7,017,316 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845045391   ⟹   ENSCAFP00845035603
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl277,060,331 - 7,082,947 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845045636   ⟹   ENSCAFP00845035805
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl277,060,331 - 7,082,947 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845045970   ⟹   ENSCAFP00845036090
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl277,060,331 - 7,082,947 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845046198   ⟹   ENSCAFP00845036276
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl277,060,331 - 7,082,947 (+)Ensembl
RefSeq Acc Id: NM_001099944   ⟹   NP_001093414
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1276,993,452 - 7,030,372 (+)NCBI
Dog10K_Boxer_Tasha2739,291,724 - 39,314,353 (-)NCBI
ROS_Cfam_1.0277,060,331 - 7,082,948 (+)NCBI
UMICH_Zoey_3.1276,997,147 - 7,019,732 (+)NCBI
UNSW_CanFamBas_1.0277,032,603 - 7,055,256 (+)NCBI
UU_Cfam_GSD_1.02739,580,125 - 39,602,733 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005302761
Type: NON-CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0277,060,672 - 7,082,937 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001093414   ⟸   NM_001099944
- UniProtKB: A6NAA6 (UniProtKB/TrEMBL),   A0A8P0NBI1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000035426   ⟸   ENSCAFT00000039555
RefSeq Acc Id: ENSCAFP00000013515   ⟸   ENSCAFT00000014611
RefSeq Acc Id: ENSCAFP00845035603   ⟸   ENSCAFT00845045391
RefSeq Acc Id: ENSCAFP00845035805   ⟸   ENSCAFT00845045636
RefSeq Acc Id: ENSCAFP00845036276   ⟸   ENSCAFT00845046198
RefSeq Acc Id: ENSCAFP00845036090   ⟸   ENSCAFT00845045970
Protein Domains
Cyclic nucleotide-binding   DEP   EndoU   N-terminal Ras-GEF   Ras-GEF   SMB


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000009181 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030024671 UniProtKB/TrEMBL
  ENSCAFG00040019056 UniProtKB/TrEMBL
  ENSCAFG00845025684 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000014611.5 UniProtKB/TrEMBL
  ENSCAFT00000014634.6 UniProtKB/TrEMBL
  ENSCAFT00000014641.5 UniProtKB/TrEMBL
  ENSCAFT00000039555.5 UniProtKB/TrEMBL
  ENSCAFT00000108415.1 UniProtKB/TrEMBL
  ENSCAFT00030045949.1 UniProtKB/TrEMBL
  ENSCAFT00030046011.1 UniProtKB/TrEMBL
  ENSCAFT00030046043.1 UniProtKB/TrEMBL
  ENSCAFT00040035299.1 UniProtKB/TrEMBL
  ENSCAFT00040035552.1 UniProtKB/TrEMBL
  ENSCAFT00040035731.1 UniProtKB/TrEMBL
  ENSCAFT00845045391.1 UniProtKB/TrEMBL
  ENSCAFT00845045636 ENTREZGENE
  ENSCAFT00845045636.1 UniProtKB/TrEMBL
  ENSCAFT00845045970.1 UniProtKB/TrEMBL
  ENSCAFT00845046198.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/TrEMBL
  1.10.8.1240 UniProtKB/TrEMBL
  1.10.840.10 UniProtKB/TrEMBL
  2.60.120.10 UniProtKB/TrEMBL
  4.10.410.20 UniProtKB/TrEMBL
  Son of sevenless (SoS) protein Chain: S domain 1 UniProtKB/TrEMBL
InterPro cNMP-bd-like UniProtKB/TrEMBL
  cNMP-bd_dom UniProtKB/TrEMBL
  DEP_dom UniProtKB/TrEMBL
  ENDOU UniProtKB/TrEMBL
  EndoU-like UniProtKB/TrEMBL
  EndoU_C UniProtKB/TrEMBL
  Ras-like_GEF UniProtKB/TrEMBL
  Ras-like_Gua-exchang_fac_N UniProtKB/TrEMBL
  Ras_G-nucl-exch_fac_CS UniProtKB/TrEMBL
  Ras_GEF_dom_sf UniProtKB/TrEMBL
  RASGEF_cat_dom UniProtKB/TrEMBL
  RASGEF_cat_dom_sf UniProtKB/TrEMBL
  RmlC-like_jellyroll UniProtKB/TrEMBL
  SMB_chordata UniProtKB/TrEMBL
  Somatomedin_B-like_dom_sf UniProtKB/TrEMBL
  Somatomedin_B_dom UniProtKB/TrEMBL
  Ubiquitin-like_domsf UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report cfa:486591 UniProtKB/TrEMBL
NCBI Gene RAPGEF3 ENTREZGENE
PANTHER PLACENTAL PROTEIN 11-RELATED UniProtKB/TrEMBL
  POLY(U)-SPECIFIC ENDORIBONUCLEASE UniProtKB/TrEMBL
  PTHR23113 UniProtKB/TrEMBL
  RAP GUANINE NUCLEOTIDE EXCHANGE FACTOR 3 UniProtKB/TrEMBL
Pfam cNMP_binding UniProtKB/TrEMBL
  DEP UniProtKB/TrEMBL
  RasGEF UniProtKB/TrEMBL
  RasGEF_N UniProtKB/TrEMBL
  Somatomedin_B UniProtKB/TrEMBL
  XendoU UniProtKB/TrEMBL
PRINTS CAMPKINASE UniProtKB/TrEMBL
  SOMATOMEDINB UniProtKB/TrEMBL
PROSITE CNMP_BINDING_3 UniProtKB/TrEMBL
  DEP UniProtKB/TrEMBL
  ENDOU UniProtKB/TrEMBL
  RASGEF UniProtKB/TrEMBL
  RASGEF_CAT UniProtKB/TrEMBL
  RASGEF_NTER UniProtKB/TrEMBL
  SMB_1 UniProtKB/TrEMBL
  SMB_2 UniProtKB/TrEMBL
SMART cNMP UniProtKB/TrEMBL
  DEP UniProtKB/TrEMBL
  RasGEF UniProtKB/TrEMBL
  RasGEFN UniProtKB/TrEMBL
  SM00201 UniProtKB/TrEMBL
Superfamily-SCOP EndoU-like UniProtKB/TrEMBL
  Somatomedin B domain UniProtKB/TrEMBL
  SSF46785 UniProtKB/TrEMBL
  SSF48366 UniProtKB/TrEMBL
  SSF51206 UniProtKB/TrEMBL
  SSF54236 UniProtKB/TrEMBL
UniProt A0A8C0PLX1_CANLF UniProtKB/TrEMBL
  A0A8C0RT34_CANLF UniProtKB/TrEMBL
  A0A8C0T4Z5_CANLF UniProtKB/TrEMBL
  A0A8C0T5P8_CANLF UniProtKB/TrEMBL
  A0A8I3PR02_CANLF UniProtKB/TrEMBL
  A0A8I3PW63_CANLF UniProtKB/TrEMBL
  A0A8I3PX10_CANLF UniProtKB/TrEMBL
  A0A8I3S5S5_CANLF UniProtKB/TrEMBL
  A0A8P0NBB6_CANLF UniProtKB/TrEMBL
  A0A8P0NBI1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0SE63_CANLF UniProtKB/TrEMBL
  A0A8P0SQS1_CANLF UniProtKB/TrEMBL
  A6NAA6 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:45348 ENTREZGENE