Abcb5 (ATP binding cassette subfamily B member 5) - Rat Genome Database

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Gene: Abcb5 (ATP binding cassette subfamily B member 5) Rattus norvegicus
Analyze
Symbol: Abcb5
Name: ATP binding cassette subfamily B member 5
RGD ID: 1566342
Description: Predicted to enable ATPase-coupled transmembrane transporter activity and efflux transmembrane transporter activity. Predicted to be involved in eye development; regulation of membrane potential; and transmembrane transport. Predicted to be located in plasma membrane. Predicted to be active in membrane. Orthologous to human ABCB5 (ATP binding cassette subfamily B member 5); INTERACTS WITH N,N-diethyl-m-toluamide; permethrin; 2,4,6-tribromophenol (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ATP-binding cassette sub-family B member 5; ATP-binding cassette, sub-family B (MDR/TAP), member 5; ATP-binding cassette, subfamily B (MDR/TAP), member 5; LOC314537; RGD1566342; similar to ATP-binding cassette, sub-family B, member 5
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
mRatBN7.26139,836,528 - 139,932,830 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6139,835,949 - 139,932,830 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.06146,805,481 - 146,902,339 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6146,805,599 - 146,902,339 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06155,713,932 - 155,809,554 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46146,177,114 - 146,287,478 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera6137,483,710 - 137,579,013 (-)NCBICelera
Cytogenetic Map6q33NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

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:12960149   PMID:25030174   PMID:35738589  


Genomics

Comparative Map Data
Abcb5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26139,836,528 - 139,932,830 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl6139,835,949 - 139,932,830 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.06146,805,481 - 146,902,339 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl6146,805,599 - 146,902,339 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.06155,713,932 - 155,809,554 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.46146,177,114 - 146,287,478 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera6137,483,710 - 137,579,013 (-)NCBICelera
Cytogenetic Map6q33NCBI
ABCB5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38720,615,667 - 20,757,008 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl720,615,667 - 20,777,038 (+)EnsemblGRCh38hg38GRCh38
GRCh37720,655,290 - 20,796,631 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36720,653,741 - 20,761,821 (+)NCBINCBI36Build 36hg18NCBI36
Build 34720,460,284 - 20,568,487NCBI
Celera720,639,480 - 20,782,083 (+)NCBICelera
Cytogenetic Map7p21.1NCBI
HuRef720,544,004 - 20,681,429 (+)NCBIHuRef
CHM1_1720,655,593 - 20,797,106 (+)NCBICHM1_1
T2T-CHM13v2.0720,750,588 - 20,892,996 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2720,706,592 - 20,847,927 (+)NCBI
Abcb5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912118,831,221 - 118,930,169 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl12118,831,559 - 118,930,156 (-)EnsemblGRCm39 Ensembl
GRCm3812118,867,486 - 118,966,434 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12118,867,824 - 118,966,421 (-)EnsemblGRCm38mm10GRCm38
MGSCv3712120,106,297 - 120,204,894 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3612113,093,355 - 113,192,288 (-)NCBIMGSCv36mm8
MGSCv3612119,311,950 - 119,410,523 (-)NCBIMGSCv36mm8
Cytogenetic Map12F2NCBI
Abcb5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541023,283,263 - 23,379,000 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541023,283,263 - 23,379,000 (+)NCBIChiLan1.0ChiLan1.0
ABCB5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1720,617,567 - 20,746,683 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl720,620,875 - 20,746,634 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0721,302,954 - 21,432,569 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ABCB5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11434,645,722 - 34,760,636 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1434,637,196 - 34,760,433 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1434,141,285 - 34,303,183 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01434,525,456 - 34,686,254 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1434,528,356 - 34,686,261 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11434,643,386 - 34,806,295 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01434,343,924 - 34,506,781 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01434,654,940 - 34,841,620 (+)NCBIUU_Cfam_GSD_1.0
Abcb5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511878,898,499 - 79,045,176 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365466,605,381 - 6,720,294 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365466,573,617 - 6,720,294 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABCB5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl989,632,204 - 89,738,606 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1989,620,783 - 89,751,876 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2998,854,311 - 99,073,375 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ABCB5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12137,491,638 - 37,620,002 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2137,492,483 - 37,619,527 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604266,955,825 - 67,084,061 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Abcb5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247399,802,817 - 9,976,572 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Abcb5
404 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:75
Count of miRNA genes:64
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000050893, ENSRNOT00000074197
Prediction methods: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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)665531555140994061Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)694968928139968928Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)696833997140994061Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6100364669140994061Rat
71111Iddm8Insulin dependent diabetes mellitus QTL 81.90.002blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)6105156861140994061Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6112636280140994061Rat
2293085Iddm29Insulin dependent diabetes mellitus QTL 297.66blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)6122549046140286318Rat
61329Eae9Experimental allergic encephalomyelitis QTL 93.7body mass (VT:0001259)change in body weight (CMO:0002045)6122549046140994061Rat

Markers in Region
BE107320  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.26139,824,332 - 139,824,491 (+)MAPPERmRatBN7.2
Rnor_6.06146,792,986 - 146,793,142NCBIRnor6.0
Rnor_5.06155,701,502 - 155,701,658UniSTSRnor5.0
RGSC_v3.46146,177,297 - 146,177,454UniSTSRGSC3.4
Celera6137,471,213 - 137,471,370UniSTS
RH 3.4 Map6905.7UniSTS
Cytogenetic Map6q33UniSTS


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

nervous system reproductive system
High
Medium
Low 3
Below cutoff 3 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000050893   ⟹   ENSRNOP00000045152
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl6139,835,949 - 139,932,830 (-)Ensembl
Rnor_6.0 Ensembl6146,805,599 - 146,902,339 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000074197   ⟹   ENSRNOP00000066405
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6146,826,451 - 146,861,787 (-)Ensembl
RefSeq Acc Id: XM_006240713   ⟹   XP_006240775
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26139,836,528 - 139,932,830 (-)NCBI
Rnor_6.06146,805,481 - 146,902,339 (-)NCBI
Rnor_5.06155,713,932 - 155,809,554 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_006240775 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL89093 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_006240775   ⟸   XM_006240713
- UniProtKB: D4AEL4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000045152   ⟸   ENSRNOT00000050893
RefSeq Acc Id: ENSRNOP00000066405   ⟸   ENSRNOT00000074197
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AEL4-F1-model_v2 AlphaFold D4AEL4 1-1255 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1566342 AgrOrtholog
BioCyc Gene G2FUF-35459 BioCyc
Ensembl Genes ENSRNOG00000006398 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000045152 ENTREZGENE
  ENSRNOP00000045152.3 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050893 ENTREZGENE
  ENSRNOT00000050893.6 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1560.10 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/TrEMBL
  ABC1_TM_sf UniProtKB/TrEMBL
  ABC_transporter-like UniProtKB/TrEMBL
  ABC_transporter_CS UniProtKB/TrEMBL
  ABC_transptrTM_dom_typ1 UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Type_I_exporter UniProtKB/TrEMBL
KEGG Report rno:314537 UniProtKB/TrEMBL
NCBI Gene 314537 ENTREZGENE
PANTHER PTHR24221 UniProtKB/TrEMBL
Pfam ABC_membrane UniProtKB/TrEMBL
  ABC_tran UniProtKB/TrEMBL
PhenoGen Abcb5 PhenoGen
PROSITE ABC_TM1F UniProtKB/TrEMBL
  ABC_TRANSPORTER_1 UniProtKB/TrEMBL
  ABC_TRANSPORTER_2 UniProtKB/TrEMBL
SMART AAA UniProtKB/TrEMBL
Superfamily-SCOP ABC_TM_1 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt D4AEL4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Abcb5  ATP binding cassette subfamily B member 5  Abcb5  ATP-binding cassette, subfamily B (MDR/TAP), member 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-11-16 Abcb5  ATP-binding cassette, subfamily B (MDR/TAP), member 5  Abcb5  ATP-binding cassette, sub-family B (MDR/TAP), member 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Abcb5  ATP-binding cassette, sub-family B (MDR/TAP), member 5  RGD1566342_predicted  similar to ATP-binding cassette, sub-family B, member 5 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1566342_predicted  similar to ATP-binding cassette, sub-family B, member 5 (predicted)  LOC314537  similar to ATP-binding cassette, sub-family B, member 5  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC314537  similar to ATP-binding cassette, sub-family B, member 5      Symbol and Name status set to provisional 70820 PROVISIONAL