Abca17 (ATP-binding cassette, subfamily A (ABC1), member 17) - Rat Genome Database

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Gene: Abca17 (ATP-binding cassette, subfamily A (ABC1), member 17) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Abca17
Name: ATP-binding cassette, subfamily A (ABC1), member 17
RGD ID: 1560494
Description: Predicted to enable ATPase-coupled transmembrane transporter activity and lipid transporter activity. Predicted to be involved in lipid transport. Predicted to act upstream of or within neutral lipid metabolic process. Predicted to be located in endoplasmic reticulum membrane; INTERACTS WITH 3,4-methylenedioxymethamphetamine; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: ATP-binding cassette sub-family A member 17; ATP-binding cassette, sub-family A (ABC1), member 17
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81013,793,810 - 13,886,718 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1013,792,830 - 13,886,039 (-)EnsemblGRCr8
mRatBN7.21013,289,246 - 13,382,221 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1013,289,001 - 13,381,651 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1018,034,204 - 18,122,159 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01017,523,043 - 17,610,995 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01013,022,227 - 13,110,181 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01013,630,076 - 13,723,155 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1013,630,097 - 13,716,931 (-)Ensemblrn6Rnor6.0
Rnor_5.01013,445,272 - 13,538,832 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41013,512,097 - 13,600,503 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1012,975,136 - 13,049,984 (-)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse:




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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15810880  


Genomics

Variants

.
Variants in Abca17
450 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:47
Count of miRNA genes:45
Interacting mature miRNAs:47
Transcripts:ENSRNOT00000060818
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
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)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10130004247Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10117749933Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat

Markers in Region
AI713182  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21013,315,471 - 13,316,316 (+)MAPPERmRatBN7.2
Rnor_6.01013,656,285 - 13,657,129NCBIRnor6.0
Rnor_5.01013,472,274 - 13,473,118UniSTSRnor5.0
RGSC_v3.41013,539,945 - 13,540,789UniSTSRGSC3.4
Celera1013,001,508 - 13,002,352UniSTS
RH 3.4 Map10196.22UniSTS
Cytogenetic Map10q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 9 57 158 90 90 59 51 59 6 284 138 11 137 64 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001031637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001439647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245927 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006245928 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008767557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039085355 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268557 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268558 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063268561 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010055139 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB196699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC098526 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000010 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000060818   ⟹   ENSRNOP00000057544
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,792,830 - 13,886,039 (-)Ensembl
mRatBN7.2 Ensembl1013,289,001 - 13,381,651 (-)Ensembl
Rnor_6.0 Ensembl1013,630,097 - 13,716,931 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000112988   ⟹   ENSRNOP00000086705
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1013,792,830 - 13,886,039 (-)Ensembl
mRatBN7.2 Ensembl1013,289,001 - 13,381,651 (-)Ensembl
RefSeq Acc Id: NM_001031637   ⟹   NP_001026807
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,831 - 13,880,665 (-)NCBI
mRatBN7.21013,289,283 - 13,376,120 (-)NCBI
Rnor_6.01013,630,097 - 13,716,931 (-)NCBI
Rnor_5.01013,445,272 - 13,538,832 (-)NCBI
RGSC_v3.41013,512,097 - 13,600,503 (-)RGD
Celera1012,975,136 - 13,049,984 (-)RGD
Sequence:
RefSeq Acc Id: XM_006245927   ⟹   XP_006245989
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,886,717 (-)NCBI
mRatBN7.21013,289,283 - 13,382,219 (-)NCBI
Rnor_6.01013,630,076 - 13,723,155 (-)NCBI
Rnor_5.01013,445,272 - 13,538,832 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006245928   ⟹   XP_006245990
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,886,717 (-)NCBI
mRatBN7.21013,289,246 - 13,382,219 (-)NCBI
Rnor_6.01013,630,076 - 13,723,155 (-)NCBI
Rnor_5.01013,445,272 - 13,538,832 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008767555   ⟹   XP_008765777
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,886,718 (-)NCBI
mRatBN7.21013,289,246 - 13,382,220 (-)NCBI
Rnor_6.01013,630,076 - 13,717,049 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008767556   ⟹   XP_008765778
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,880,714 (-)NCBI
mRatBN7.21013,289,246 - 13,376,169 (-)NCBI
Rnor_6.01013,630,076 - 13,716,936 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008767557   ⟹   XP_008765779
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,886,718 (-)NCBI
mRatBN7.21013,289,246 - 13,382,221 (-)NCBI
Rnor_6.01013,630,076 - 13,717,049 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039085351   ⟹   XP_038941279
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,886,718 (-)NCBI
mRatBN7.21013,289,246 - 13,382,221 (-)NCBI
RefSeq Acc Id: XM_039085353   ⟹   XP_038941281
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,867,458 (-)NCBI
mRatBN7.21013,289,246 - 13,362,912 (-)NCBI
RefSeq Acc Id: XM_039085354   ⟹   XP_038941282
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,857,181 (-)NCBI
mRatBN7.21013,289,246 - 13,351,429 (-)NCBI
RefSeq Acc Id: XM_039085355   ⟹   XP_038941283
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,817,663 - 13,886,711 (-)NCBI
mRatBN7.21013,313,054 - 13,382,203 (-)NCBI
RefSeq Acc Id: XM_063268557   ⟹   XP_063124627
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,875,472 (-)NCBI
RefSeq Acc Id: XM_063268558   ⟹   XP_063124628
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,836,005 (-)NCBI
RefSeq Acc Id: XM_063268560   ⟹   XP_063124630
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,836,007 (-)NCBI
RefSeq Acc Id: XM_063268561   ⟹   XP_063124631
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,793,810 - 13,836,008 (-)NCBI
RefSeq Acc Id: XR_010055139
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81013,817,663 - 13,886,713 (-)NCBI
RefSeq Acc Id: NP_001026807   ⟸   NM_001031637
- UniProtKB: Q4H493 (UniProtKB/Swiss-Prot),   E9PU17 (UniProtKB/Swiss-Prot),   A0A8I6A6S8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245990   ⟸   XM_006245928
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006245989   ⟸   XM_006245927
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008765779   ⟸   XM_008767557
- Peptide Label: isoform X5
- UniProtKB: A0A8I6A6S8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008765777   ⟸   XM_008767555
- Peptide Label: isoform X2
- UniProtKB: A0A8I6A6S8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008765778   ⟸   XM_008767556
- Peptide Label: isoform X3
- UniProtKB: A0A8I6A6S8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000057544   ⟸   ENSRNOT00000060818
RefSeq Acc Id: XP_038941279   ⟸   XM_039085351
- Peptide Label: isoform X4
- UniProtKB: A0A8I6A6S8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038941281   ⟸   XM_039085353
- Peptide Label: isoform X7
- UniProtKB: A0A8I6A6S8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038941282   ⟸   XM_039085354
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038941283   ⟸   XM_039085355
- Peptide Label: isoform X12
Ensembl Acc Id: ENSRNOP00000086705   ⟸   ENSRNOT00000112988
RefSeq Acc Id: XP_063124627   ⟸   XM_063268557
- Peptide Label: isoform X6
- UniProtKB: A0A8I6A6S8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063124631   ⟸   XM_063268561
- Peptide Label: isoform X11
RefSeq Acc Id: XP_063124630   ⟸   XM_063268560
- Peptide Label: isoform X10
RefSeq Acc Id: XP_063124628   ⟸   XM_063268558
- Peptide Label: isoform X9
Protein Domains
ABC transporter

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-E9PU17-F1-model_v2 AlphaFold E9PU17 1-1773 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:1560494 AgrOrtholog
BioCyc Gene G2FUF-25866 BioCyc
Ensembl Genes ENSRNOG00000039656 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000060818 ENTREZGENE
  ENSRNOT00000060818.3 UniProtKB/Swiss-Prot
  ENSRNOT00000112988 ENTREZGENE
Gene3D-CATH 3.40.50.300 UniProtKB/Swiss-Prot
InterPro AAA+_ATPase UniProtKB/Swiss-Prot
  ABC2_TM UniProtKB/Swiss-Prot
  ABC_A UniProtKB/Swiss-Prot
  ABC_transporter-like UniProtKB/Swiss-Prot
  P-loop_NTPase UniProtKB/Swiss-Prot
  R2_ABCA1-4-like UniProtKB/Swiss-Prot
KEGG Report rno:287112 UniProtKB/Swiss-Prot
NCBI Gene 287112 ENTREZGENE
PANTHER ATP-BINDING CASSETTE SUB-FAMILY A MEMBER 17 UniProtKB/Swiss-Prot
  PTHR19229 UniProtKB/Swiss-Prot
Pfam ABC2_membrane_3 UniProtKB/Swiss-Prot
  ABC_tran UniProtKB/Swiss-Prot
  R1_ABCA1 UniProtKB/Swiss-Prot
PhenoGen Abca17 PhenoGen
PROSITE ABC_TRANSPORTER_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000039656 RatGTEx
SMART AAA UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot
UniProt A0A8I6A6S8 ENTREZGENE, UniProtKB/TrEMBL
  ABCAH_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q4H493 ENTREZGENE
UniProt Secondary Q4H493 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-11-16 Abca17  ATP-binding cassette, subfamily A (ABC1), member 17  Abca17  ATP-binding cassette, sub-family A (ABC1), member 17  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 Abca17  ATP-binding cassette, sub-family A (ABC1), member 17      Symbol and Name status set to provisional 70820 PROVISIONAL