RAB25 (RAB25, member RAS oncogene family) - Rat Genome Database

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Gene: RAB25 (RAB25, member RAS oncogene family) Homo sapiens
Analyze
Symbol: RAB25
Name: RAB25, member RAS oncogene family
RGD ID: 1318219
HGNC Page HGNC
Description: Exhibits myosin V binding activity. Involved in several processes, including positive regulation of cell population proliferation; positive regulation of epithelial cell migration; and pseudopodium organization. Localizes to cytoplasmic vesicle and pseudopodium.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: CATX-8; RAB11C; ras-related protein Rab-25
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1156,061,160 - 156,070,504 (+)EnsemblGRCh38hg38GRCh38
GRCh381156,061,160 - 156,070,504 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371156,030,951 - 156,040,295 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361154,297,590 - 154,306,919 (+)NCBINCBI36hg18NCBI36
Build 341152,844,054 - 152,853,321NCBI
Celera1129,104,027 - 129,113,356 (+)NCBI
Cytogenetic Map1q22NCBI
HuRef1127,393,546 - 127,402,815 (+)NCBIHuRef
CHM1_11157,427,029 - 157,436,413 (+)NCBICHM1_1
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

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
References

Additional References at PubMed
PMID:8360141   PMID:8889548   PMID:9389793   PMID:11408590   PMID:11481332   PMID:11495908   PMID:11591653   PMID:11697911   PMID:12477932   PMID:15342556   PMID:15489334   PMID:15502842  
PMID:15761153   PMID:16473633   PMID:17207965   PMID:17255364   PMID:17353931   PMID:17393986   PMID:17507647   PMID:17925226   PMID:18029348   PMID:19056867   PMID:19795443   PMID:20197623  
PMID:21075212   PMID:21292315   PMID:21873635   PMID:22249560   PMID:22253197   PMID:22613965   PMID:22644676   PMID:22991305   PMID:23030522   PMID:23176489   PMID:23340300   PMID:23345591  
PMID:23376485   PMID:23722651   PMID:24006491   PMID:24056041   PMID:24403269   PMID:24955142   PMID:25339198   PMID:25405658   PMID:25455994   PMID:25686498   PMID:26032412   PMID:26186194  
PMID:26535714   PMID:26646320   PMID:26692100   PMID:26967059   PMID:27103069   PMID:27259233   PMID:27379752   PMID:28281975   PMID:28514442   PMID:28611215   PMID:28612496   PMID:28922401  
PMID:29079774   PMID:29371698   PMID:29509190   PMID:29524309   PMID:29676528   PMID:30445998   PMID:30575818   PMID:30848009   PMID:31144312   PMID:32296183   PMID:33015770  


Genomics

Comparative Map Data
RAB25
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1156,061,160 - 156,070,504 (+)EnsemblGRCh38hg38GRCh38
GRCh381156,061,160 - 156,070,504 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371156,030,951 - 156,040,295 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361154,297,590 - 154,306,919 (+)NCBINCBI36hg18NCBI36
Build 341152,844,054 - 152,853,321NCBI
Celera1129,104,027 - 129,113,356 (+)NCBI
Cytogenetic Map1q22NCBI
HuRef1127,393,546 - 127,402,815 (+)NCBIHuRef
CHM1_11157,427,029 - 157,436,413 (+)NCBICHM1_1
Rab25
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39388,449,335 - 88,455,586 (-)NCBIGRCm39mm39
GRCm39 Ensembl388,449,336 - 88,455,607 (-)Ensembl
GRCm38388,542,029 - 88,548,279 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl388,542,029 - 88,548,300 (-)EnsemblGRCm38mm10GRCm38
MGSCv37388,345,951 - 88,352,201 (-)NCBIGRCm37mm9NCBIm37
MGSCv36388,627,956 - 88,634,206 (-)NCBImm8
Celera388,581,833 - 88,588,086 (-)NCBICelera
Cytogenetic Map3F1NCBI
Rab25
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22174,000,323 - 174,006,422 (-)NCBI
Rnor_6.0 Ensembl2187,903,307 - 187,909,394 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02187,903,301 - 187,909,398 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02207,305,701 - 207,311,798 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42180,657,125 - 180,663,222 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12180,607,238 - 180,613,101 (-)NCBI
Celera2167,944,713 - 167,950,810 (-)NCBICelera
Cytogenetic Map2q34NCBI
Rab25
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555452,242,944 - 2,252,840 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555452,243,237 - 2,250,507 (+)NCBIChiLan1.0ChiLan1.0
RAB25
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11135,232,548 - 135,241,732 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1135,232,544 - 135,241,732 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01131,403,058 - 131,412,722 (+)NCBIMhudiblu_PPA_v0panPan3
RAB25
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1741,752,975 - 41,758,954 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl741,752,975 - 41,758,906 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha741,242,503 - 41,248,434 (-)NCBI
ROS_Cfam_1.0741,619,537 - 41,625,449 (-)NCBI
UMICH_Zoey_3.1741,400,370 - 41,406,300 (-)NCBI
UNSW_CanFamBas_1.0741,453,730 - 41,459,642 (-)NCBI
UU_Cfam_GSD_1.0741,738,146 - 41,744,077 (-)NCBI
Rab25
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505826,290,971 - 26,298,873 (+)NCBI
SpeTri2.0NW_0049365805,321,394 - 5,329,256 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RAB25
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl493,961,148 - 93,970,712 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1493,961,136 - 93,970,742 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24102,703,914 - 102,713,526 (-)NCBISscrofa10.2Sscrofa10.2susScr3
RAB25
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1207,794,890 - 7,804,528 (-)NCBI
ChlSab1.1 Ensembl207,794,884 - 7,804,246 (-)Ensembl
Vero_WHO_p1.0NW_0236660387,090,927 - 7,100,344 (-)NCBI
Rab25
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248851,404,922 - 1,411,427 (+)NCBI

Position Markers
A005X41  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371156,040,157 - 156,040,279UniSTSGRCh37
Build 361154,306,781 - 154,306,903RGDNCBI36
Celera1129,113,218 - 129,113,340RGD
Cytogenetic Map1q22UniSTS
HuRef1127,402,677 - 127,402,799UniSTS
GeneMap99-GB4 RH Map1562.58UniSTS
WI-11851  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371156,040,147 - 156,040,289UniSTSGRCh37
Build 361154,306,771 - 154,306,913RGDNCBI36
Celera1129,113,208 - 129,113,350RGD
Cytogenetic Map1q22UniSTS
HuRef1127,402,667 - 127,402,809UniSTS
GeneMap99-GB4 RH Map1562.48UniSTS
GeneMap99-GB4 RH Map1562.37UniSTS
Whitehead-RH Map1690.4UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1190
Count of miRNA genes:585
Interacting mature miRNAs:620
Transcripts:ENST00000361084, ENST00000463614, ENST00000473336, ENST00000487325, ENST00000497968
Prediction methods:Microtar, 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.


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 sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High 2
Medium 928 3 1007 201 186 43 1510 17 270 249 607 1469 170 1 11 706 5 2
Low 534 265 283 251 341 250 483 246 1037 52 644 47 3 149 373 1
Below cutoff 945 2574 372 136 1143 136 2220 1808 2331 83 192 81 1016 1627

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000361084   ⟹   ENSP00000354376
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1156,061,160 - 156,070,504 (+)Ensembl
RefSeq Acc Id: ENST00000463614
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1156,061,189 - 156,066,282 (+)Ensembl
RefSeq Acc Id: ENST00000473336
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1156,061,383 - 156,070,504 (+)Ensembl
RefSeq Acc Id: ENST00000487325
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1156,061,206 - 156,070,106 (+)Ensembl
RefSeq Acc Id: ENST00000497968
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl1156,068,212 - 156,070,365 (+)Ensembl
RefSeq Acc Id: NM_020387   ⟹   NP_065120
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381156,061,160 - 156,070,504 (+)NCBI
GRCh371156,030,966 - 156,040,295 (+)ENTREZGENE
Build 361154,297,590 - 154,306,919 (+)NCBI Archive
HuRef1127,393,546 - 127,402,815 (+)ENTREZGENE
CHM1_11157,427,029 - 157,436,413 (+)NCBI
Sequence:
RefSeq Acc Id: NR_133653
RefSeq Status: REVIEWED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381156,061,160 - 156,070,504 (+)NCBI
CHM1_11157,427,029 - 157,436,413 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_065120   ⟸   NM_020387
- Peptide Label: precursor
- UniProtKB: P57735 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSP00000354376   ⟸   ENST00000361084

Promoters
RGD ID:6857532
Promoter ID:EPDNEW_H1931
Type:initiation region
Name:RAB25_1
Description:RAB25, member RAS oncogene family
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381156,061,163 - 156,061,223EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
NM_014017.3(LAMTOR2):c.249C>T (p.Ile83=) single nucleotide variant Malignant melanoma [RCV000059920] Chr1:156057995 [GRCh38]
Chr1:156027786 [GRCh37]
Chr1:154294410 [NCBI36]
Chr1:1q22
not provided
GRCh38/hg38 1q22(chr1:155834419-156434205)x3 copy number gain See cases [RCV000138885] Chr1:155834419..156434205 [GRCh38]
Chr1:155804210..156403997 [GRCh37]
Chr1:154070834..154670621 [NCBI36]
Chr1:1q22
uncertain significance
GRCh38/hg38 1q21.3-23.1(chr1:154566501-157624084)x3 copy number gain See cases [RCV000139902] Chr1:154566501..157624084 [GRCh38]
Chr1:154538977..157593874 [GRCh37]
Chr1:152805601..155860498 [NCBI36]
Chr1:1q21.3-23.1
pathogenic
GRCh38/hg38 1q21.2-25.2(chr1:149854269-180267197)x3 copy number gain See cases [RCV000143515] Chr1:149854269..180267197 [GRCh38]
Chr1:149825831..180236332 [GRCh37]
Chr1:148092455..178502955 [NCBI36]
Chr1:1q21.2-25.2
pathogenic
NC_000001.10:g.(?_155880221)_(156109650_?)del deletion Noonan syndrome 8 [RCV000541808] Chr1:155880221..156109650 [GRCh37]
Chr1:1q22
uncertain significance
GRCh37/hg19 1q22(chr1:155902781-156210031)x3 copy number gain See cases [RCV000447140] Chr1:155902781..156210031 [GRCh37]
Chr1:1q22
uncertain significance
GRCh37/hg19 1p36.33-q44(chr1:849467-249224684)x3 copy number gain See cases [RCV000510383] Chr1:849467..249224684 [GRCh37]
Chr1:1p36.33-q44
pathogenic
GRCh37/hg19 1p36.33-q44(chr1:849467-249224684) copy number gain See cases [RCV000510926] Chr1:849467..249224684 [GRCh37]
Chr1:1p36.33-q44
pathogenic
Single allele inversion Pediatric metastatic thyroid tumour [RCV000585807] Chr1:154130985..156843877 [GRCh37]
Chr1:1q21.3-23.1
likely pathogenic
GRCh37/hg19 1q21.3-23.1(chr1:153751465-156660462)x3 copy number gain not provided [RCV000585385] Chr1:153751465..156660462 [GRCh37]
Chr1:1q21.3-23.1
likely pathogenic
GRCh37/hg19 1q22-23.1(chr1:155636337-158024499)x1 copy number loss not provided [RCV000684658] Chr1:155636337..158024499 [GRCh37]
Chr1:1q22-23.1
pathogenic
GRCh37/hg19 1q22-23.1(chr1:155999570-156844432)x3 copy number gain not provided [RCV000684659] Chr1:155999570..156844432 [GRCh37]
Chr1:1q22-23.1
uncertain significance
GRCh37/hg19 1p36.33-q44(chr1:47851-249228449)x3 copy number gain not provided [RCV000736295] Chr1:47851..249228449 [GRCh37]
Chr1:1p36.33-q44
pathogenic
GRCh37/hg19 1p36.33-q44(chr1:82154-249218992)x3 copy number gain not provided [RCV000736305] Chr1:82154..249218992 [GRCh37]
Chr1:1p36.33-q44
pathogenic
NC_000001.10:g.(?_155870169)_(156108907_?)dup duplication Charcot-Marie-Tooth disease, type 2 [RCV000817926] Chr1:155900378..156139116 [GRCh38]
Chr1:155870169..156108907 [GRCh37]
Chr1:1q22
uncertain significance
GRCh37/hg19 1q22(chr1:156037369-156463980)x3 copy number gain not provided [RCV000846254] Chr1:156037369..156463980 [GRCh37]
Chr1:1q22
uncertain significance
GRCh37/hg19 1q22-23.1(chr1:155770505-156652136)x3 copy number gain not provided [RCV000848811] Chr1:155770505..156652136 [GRCh37]
Chr1:1q22-23.1
uncertain significance
NC_000001.10:g.(?_130980840)_(248900000_?)dup duplication Gastrointestinal stromal tumor [RCV001300221]|Parathyroid carcinoma [RCV001341077] Chr1:130980840..248900000 [GRCh37]
Chr1:1q12-44
uncertain significance
NC_000001.10:g.(?_155880221)_(156109650_?)del deletion Noonan syndrome 8 [RCV001300703] Chr1:155880221..156109650 [GRCh37]
Chr1:1q22
uncertain significance

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:18238 AgrOrtholog
COSMIC RAB25 COSMIC
Ensembl Genes ENSG00000132698 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSP00000354376 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENST00000361084 ENTREZGENE, UniProtKB/Swiss-Prot
GTEx ENSG00000132698 GTEx
HGNC ID HGNC:18238 ENTREZGENE
Human Proteome Map RAB25 Human Proteome Map
InterPro P-loop_NTPase UniProtKB/Swiss-Prot
  Small_GTP-bd_dom UniProtKB/Swiss-Prot
  Small_GTPase UniProtKB/Swiss-Prot
KEGG Report hsa:57111 UniProtKB/Swiss-Prot
NCBI Gene 57111 ENTREZGENE
OMIM 612942 OMIM
Pfam Ras UniProtKB/Swiss-Prot
PharmGKB PA34115 PharmGKB
PROSITE RAB UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot
TIGRFAMs small_GTP UniProtKB/Swiss-Prot
UniProt P57735 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q5VYA2 UniProtKB/Swiss-Prot
  Q8NG24 UniProtKB/Swiss-Prot
  Q96GB1 UniProtKB/Swiss-Prot
  Q9BT12 UniProtKB/Swiss-Prot