RABGEF1 (RAB guanine nucleotide exchange factor 1) - Rat Genome Database

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Gene: RABGEF1 (RAB guanine nucleotide exchange factor 1) Chlorocebus sabaeus
Analyze
Symbol: RABGEF1
Name: RAB guanine nucleotide exchange factor 1
RGD ID: 18786967
Description: ENCODES a protein that exhibits ubiquitin protein ligase activity (ortholog); INVOLVED IN dendritic transport (ortholog); establishment of localization in cell (ortholog); Kit signaling pathway (ortholog); ASSOCIATED WITH argininosuccinic aciduria (ortholog); pleomorphic xanthoastrocytoma (ortholog); FOUND IN dendrite (ortholog); early endosome (ortholog); nucleolus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC103244222; rab5 GDP/GTP exchange factor; rab5 GDP/GTP exchange factor pseudogene
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1282,307,462 - 2,385,032 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607014,241,991 - 14,288,400 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
RABGEF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1282,307,462 - 2,385,032 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607014,241,991 - 14,288,400 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
RABGEF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38766,654,567 - 66,811,464 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl766,682,164 - 66,811,464 (+)EnsemblGRCh38hg38GRCh38
GRCh37766,119,554 - 66,276,451 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36765,843,078 - 65,913,886 (+)NCBINCBI36Build 36hg18NCBI36
Build 34765,649,869 - 65,720,596NCBI
Celera765,839,772 - 65,910,585 (-)NCBICelera
Cytogenetic Map7q11.21NCBI
HuRef762,390,634 - 62,461,448 (+)NCBIHuRef
CHM1_1766,300,937 - 66,371,742 (+)NCBICHM1_1
T2T-CHM13v2.0767,874,231 - 68,031,149 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2765,543,205 - 65,614,013 (+)NCBI
Rabgef1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395130,200,644 - 130,243,178 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5130,200,639 - 130,243,183 (+)EnsemblGRCm39 Ensembl
GRCm385130,171,819 - 130,214,342 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5130,171,798 - 130,214,342 (+)EnsemblGRCm38mm10GRCm38
MGSCv375130,663,050 - 130,690,207 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365130,471,883 - 130,499,040 (+)NCBIMGSCv36mm8
Celera5127,200,117 - 127,227,286 (+)NCBICelera
Cytogenetic Map5G1.3NCBI
cM Map568.78NCBI
Rabgef1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81232,096,338 - 32,139,949 (-)NCBIGRCr8
mRatBN7.21226,459,190 - 26,503,790 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1226,460,175 - 26,503,744 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1227,608,145 - 27,635,980 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01228,218,655 - 28,246,488 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01227,277,080 - 27,304,923 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01229,960,132 - 30,004,727 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1229,961,120 - 29,988,959 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01231,897,731 - 31,942,335 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41227,497,545 - 27,525,385 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11227,360,759 - 27,388,619 (-)NCBI
Celera1228,174,408 - 28,202,245 (-)NCBICelera
Cytogenetic Map12q12NCBI
Rabgef1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554568,674,469 - 8,718,821 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554568,648,925 - 8,716,337 (+)NCBIChiLan1.0ChiLan1.0
LOC100993573
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2682,033,200 - 82,110,105 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17130,358,793 - 130,437,246 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0759,268,053 - 59,344,555 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1773,775,028 - 73,850,446 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl773,775,002 - 73,850,446 (+)Ensemblpanpan1.1panPan2
RABGEF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.161,064,694 - 1,159,906 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl61,064,655 - 1,179,547 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha62,815,410 - 2,859,509 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.06896,809 - 965,086 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl6869,908 - 986,852 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.16831,713 - 899,916 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.06833,940 - 901,951 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.061,005,706 - 1,073,713 (+)NCBIUU_Cfam_GSD_1.0
Rabgef1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344126,595,855 - 126,631,497 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365437,404,944 - 7,447,173 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365437,405,070 - 7,447,940 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RABGEF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl316,308,120 - 16,376,592 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1316,308,112 - 16,376,604 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2316,560,377 - 16,628,874 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Rabgef1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247408,624,205 - 8,690,800 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247408,624,231 - 8,688,747 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 8 4 19
Low 28 16 41
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: XM_037990573   ⟹   XP_037846501
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366607014,241,991 - 14,288,400 (-)NCBI
Protein Sequences
Protein RefSeqs XP_037846501 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000014293.1
  ENSCSAP00000018099.1
Reference Protein Sequences
RefSeq Acc Id: XP_037846501   ⟸   XM_037990573
- UniProtKB: A0A0D9SB60 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000018279 ENTREZGENE, UniProtKB/TrEMBL
  ENSCSAG00000018566 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000016375.1 UniProtKB/TrEMBL
  ENSCSAT00000018656.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.246.120 UniProtKB/TrEMBL
  1.20.1050.80 UniProtKB/TrEMBL
  1.20.5.4770 UniProtKB/TrEMBL
InterPro DUF5601 UniProtKB/TrEMBL
  VPS9 UniProtKB/TrEMBL
  Vps9-like UniProtKB/TrEMBL
  VPS9_dom_sf UniProtKB/TrEMBL
  Znf_A20 UniProtKB/TrEMBL
NCBI Gene RABGEF1 ENTREZGENE
PANTHER PTHR23101 UniProtKB/TrEMBL
  RAB5 GDP/GTP EXCHANGE FACTOR UniProtKB/TrEMBL
Pfam DUF5601 UniProtKB/TrEMBL
  VPS9 UniProtKB/TrEMBL
  zf-A20 UniProtKB/TrEMBL
PROSITE VPS9 UniProtKB/TrEMBL
  ZF_A20 UniProtKB/TrEMBL
SMART VPS9 UniProtKB/TrEMBL
  ZnF_A20 UniProtKB/TrEMBL
Superfamily-SCOP Glucocorticoid receptor-like (DNA-binding domain) UniProtKB/TrEMBL
  SSF109993 UniProtKB/TrEMBL
UniProt A0A0D9S0A4_CHLSB UniProtKB/TrEMBL
  A0A0D9SB60 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-12-03 RABGEF1  RAB guanine nucleotide exchange factor 1  LOC103244222  rab5 GDP/GTP exchange factor pseudogene  Data merged from RGD:18568150 737654 PROVISIONAL