Abce1 (ATP binding cassette subfamily E member 1) - Rat Genome Database

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Gene: Abce1 (ATP binding cassette subfamily E member 1) Rattus norvegicus
Analyze
Symbol: Abce1
Name: ATP binding cassette subfamily E member 1
RGD ID: 1305301
Description: Predicted to enable several functions, including ATP binding activity; endoribonuclease inhibitor activity; and ribosomal small subunit binding activity. Predicted to be involved in negative regulation of endoribonuclease activity; ribosomal subunit export from nucleus; and translation. Predicted to be located in cytosol and mitochondrion. Human ortholog(s) of this gene implicated in human immunodeficiency virus infectious disease. Orthologous to human ABCE1 (ATP binding cassette subfamily E member 1); PARTICIPATES IN translation termination pathway; INTERACTS WITH (+)-schisandrin B; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ATP-binding cassette sub-family E member 1; ATP-binding cassette, sub-family E (OABP), member 1; ATP-binding cassette, subfamily E (OABP), member 1; LOC361390; Oabp; Rns4i
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
mRatBN7.21928,205,566 - 28,230,489 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1928,205,555 - 28,230,489 (+)Ensembl
Rnor_6.01931,867,960 - 31,892,863 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1931,867,981 - 31,892,863 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01942,771,943 - 42,796,838 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41930,093,741 - 30,118,625 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11930,098,545 - 30,123,448 (+)NCBI
Celera1927,713,656 - 27,738,540 (+)NCBICelera
Cytogenetic Map19q11NCBI
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
(+)-schisandrin B  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
1,2-dimethylhydrazine  (ISO)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
acrolein  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
C60 fullerene  (EXP)
carbon nanotube  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clozapine  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
dicrotophos  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethyl methanesulfonate  (ISO)
finasteride  (EXP)
flutamide  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
hexadecanoic acid  (ISO)
ivermectin  (ISO)
lead diacetate  (EXP)
methapyrilene  (EXP)
methyl methanesulfonate  (ISO)
methylparaben  (ISO)
N-nitrosodiethylamine  (EXP)
nefazodone  (EXP)
nimesulide  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
perfluorononanoic acid  (ISO)
phenobarbital  (EXP)
pinosylvin  (ISO)
potassium chromate  (ISO)
propiconazole  (ISO)
silicon dioxide  (ISO)
succimer  (ISO)
sunitinib  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiophenes  (ISO)
trans-pinosylvin  (ISO)
trichloroethene  (EXP)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Adenosine triphosphate-binding cassette transporter genes up-regulation in untreated hepatocellular carcinoma is mediated by cellular microRNAs. Borel F, etal., Hepatology. 2012 Mar;55(3):821-32. doi: 10.1002/hep.24682. Epub 2012 Jan 13.
2. An excess of rare genetic variation in ABCE1 among Yorubans and African-American individuals with HIV-1. Crawford DC, etal., Genes Immun. 2009 Dec;10(8):715-21. doi: 10.1038/gene.2009.57. Epub 2009 Aug 6.
3. Structural view on recycling of archaeal and eukaryotic ribosomes after canonical termination and ribosome rescue. Franckenberg S, etal., Curr Opin Struct Biol. 2012 Dec;22(6):786-96. doi: 10.1016/j.sbi.2012.08.002. Epub 2012 Sep 29.
4. 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.
5. The expression profile of ATP-binding cassette transporter genes in breast carcinoma. Hlavac V, etal., Pharmacogenomics. 2013 Apr;14(5):515-29. doi: 10.2217/pgs.13.26.
6. The role of ABC transporters in progression and clinical outcome of colorectal cancer. Hlavata I, etal., Mutagenesis. 2012 Mar;27(2):187-96. doi: 10.1093/mutage/ger075.
7. Rustless translation. Hopfner KP, Biol Chem. 2012 Oct;393(10):1079-88. doi: 10.1515/hsz-2012-0196.
8. [Expression and clinical significance of ABCE1 in human lung adenocarcinoma]. Liu DZ, etal., Zhonghua Zhong Liu Za Zhi. 2008 Apr;30(4):296-7.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:7539425   PMID:11585831   PMID:19946888  


Genomics

Comparative Map Data
Abce1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21928,205,566 - 28,230,489 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1928,205,555 - 28,230,489 (+)Ensembl
Rnor_6.01931,867,960 - 31,892,863 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1931,867,981 - 31,892,863 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01942,771,943 - 42,796,838 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41930,093,741 - 30,118,625 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11930,098,545 - 30,123,448 (+)NCBI
Celera1927,713,656 - 27,738,540 (+)NCBICelera
Cytogenetic Map19q11NCBI
ABCE1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384145,098,311 - 145,129,524 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl4145,098,288 - 145,129,524 (+)EnsemblGRCh38hg38GRCh38
GRCh374146,019,463 - 146,050,676 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364146,238,606 - 146,270,126 (+)NCBINCBI36hg18NCBI36
Build 344146,377,090 - 146,407,936NCBI
Celera4143,346,498 - 143,378,018 (+)NCBI
Cytogenetic Map4q31.21NCBI
HuRef4141,750,477 - 141,781,999 (+)NCBIHuRef
CHM1_14145,995,426 - 146,026,945 (+)NCBICHM1_1
T2T-CHM13v2.04148,415,703 - 148,446,916 (+)NCBI
Abce1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39880,410,071 - 80,438,369 (-)NCBIGRCm39mm39
GRCm39 Ensembl880,410,091 - 80,438,369 (-)Ensembl
GRCm38879,683,442 - 79,711,740 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl879,683,462 - 79,711,740 (-)EnsemblGRCm38mm10GRCm38
MGSCv37882,207,341 - 82,235,639 (-)NCBIGRCm37mm9NCBIm37
MGSCv36882,579,717 - 82,607,693 (-)NCBImm8
Celera883,959,260 - 83,987,564 (-)NCBICelera
Cytogenetic Map8C1NCBI
Abce1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554281,029,399 - 1,058,902 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554281,029,909 - 1,058,902 (+)NCBIChiLan1.0ChiLan1.0
ABCE1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14149,105,912 - 149,137,028 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4149,105,912 - 149,137,028 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04137,445,210 - 137,476,309 (+)NCBIMhudiblu_PPA_v0panPan3
ABCE1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11543,781,838 - 43,813,529 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1543,781,885 - 43,811,883 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1544,173,958 - 44,205,596 (+)NCBI
ROS_Cfam_1.01544,450,427 - 44,482,362 (+)NCBI
ROS_Cfam_1.0 Ensembl1544,450,466 - 44,486,656 (+)Ensembl
UMICH_Zoey_3.11543,723,783 - 43,755,384 (+)NCBI
UNSW_CanFamBas_1.01543,809,854 - 43,842,008 (+)NCBI
UU_Cfam_GSD_1.01544,074,527 - 44,106,452 (+)NCBI
Abce1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530146,518,167 - 46,547,561 (-)NCBI
SpeTri2.0NW_0049365353,956,490 - 3,985,002 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ABCE1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl883,299,314 - 83,353,110 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1883,302,055 - 83,353,208 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2888,572,102 - 88,623,679 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ABCE1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1791,673,359 - 91,704,774 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603771,313,759 - 71,345,010 (+)NCBIVero_WHO_p1.0
Abce1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248534,065,206 - 4,085,777 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248534,059,271 - 4,087,313 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH128283  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21928,230,091 - 28,230,294 (+)MAPPERmRatBN7.2
Rnor_6.01931,892,466 - 31,892,668NCBIRnor6.0
Rnor_5.01942,796,441 - 42,796,643UniSTSRnor5.0
RGSC_v3.41930,118,228 - 30,118,430UniSTSRGSC3.4
Celera1927,738,143 - 27,738,345UniSTS
Cytogenetic Map19q11UniSTS
UniSTS:498297  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21928,216,505 - 28,218,026 (+)MAPPERmRatBN7.2
Rnor_6.01931,878,882 - 31,880,402NCBIRnor6.0
Rnor_5.01942,782,857 - 42,784,377UniSTSRnor5.0
RGSC_v3.41930,104,642 - 30,106,162UniSTSRGSC3.4
Celera1927,724,557 - 27,726,077UniSTS
Cytogenetic Map19q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191392640130303727Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191511459834521833Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
61328Eae8Experimental allergic encephalomyelitis QTL 84nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)192481604133061905Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)192481797839654489Rat
1354600Salc2Saline consumption QTL 29.910.001drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)192753020737947399Rat
1354607Gmadr1Adrenal mass QTL 15.83adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)192753020737947399Rat
1354633Bw28Body weight QTL 286.04body mass (VT:0001259)body weight (CMO:0000012)192753020737947399Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:199
Count of miRNA genes:138
Interacting mature miRNAs:172
Transcripts:ENSRNOT00000024753
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.


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 appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024753   ⟹   ENSRNOP00000024753
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1928,205,555 - 28,230,489 (+)Ensembl
Rnor_6.0 Ensembl1931,867,981 - 31,892,863 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118958   ⟹   ENSRNOP00000087185
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1928,205,576 - 28,229,441 (+)Ensembl
RefSeq Acc Id: NM_001108446   ⟹   NP_001101916
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21928,205,605 - 28,230,489 (+)NCBI
Rnor_6.01931,867,981 - 31,892,863 (+)NCBI
Rnor_5.01942,771,943 - 42,796,838 (+)NCBI
RGSC_v3.41930,093,741 - 30,118,625 (+)RGD
Celera1927,713,656 - 27,738,540 (+)RGD
Sequence:
RefSeq Acc Id: XM_006255407   ⟹   XP_006255469
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21928,205,566 - 28,230,486 (+)NCBI
Rnor_6.01931,867,960 - 31,892,860 (+)NCBI
Rnor_5.01942,771,943 - 42,796,838 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101916 (Get FASTA)   NCBI Sequence Viewer  
  XP_006255469 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL92306 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101916   ⟸   NM_001108446
- UniProtKB: D3ZD23 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255469   ⟸   XM_006255407
- Peptide Label: isoform X1
- UniProtKB: D3ZD23 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024753   ⟸   ENSRNOT00000024753
RefSeq Acc Id: ENSRNOP00000087185   ⟸   ENSRNOT00000118958

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZD23-F1-model_v2 AlphaFold D3ZD23 1-599 view protein structure

Transcriptome

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

Promoters
RGD ID:13701050
Promoter ID:EPDNEW_R11573
Type:initiation region
Name:Abce1_1
Description:ATP binding cassette subfamily E member 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01931,867,959 - 31,868,019EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
19 31871234 31871235 A C snv FHL/EurMcwi (MCW), BXH3/CubMcwi (2020), COP/CrCrl (MCW & UW), CDS, CDR, GH/OmrMcwi (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), BXH2/CubMcwi (2020), FHH/EurMcwi (MCW), HXB4/IpcvMcwi (2020), LEW/Crl (2019), MR/N (2020)
19 31871253 31871254 G T snv SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), GH/OmrMcwi (MCW), FHL/EurMcwi (MCW), COP/CrCrl (MCW & UW), LEW/Crl (2019), CDR, SHRSP/Gcrc (RGD), BXH3/CubMcwi (2020), HXB4/IpcvMcwi (2020), CDS
19 31871258 31871259 C T snv LEW/Crl (2019), HXB4/IpcvMcwi (2020), BXH3/CubMcwi (2020), SHRSP/Gcrc (RGD), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), GH/OmrMcwi (MCW), FHL/EurMcwi (MCW), CDS, COP/CrCrl (MCW & UW)
19 31872458 31872459 G C snv M520/N (2020), WAG/RijCrl (2020), BN/SsN (2020), SR/JrHsd (RGD), SHRSP/Gcrc (RGD), MHS/Gib (RGD), LH/MavRrrc (RGD), LEW/NCrlBR (RGD), LEW/Crl (RGD), LE/Stm (RGD), ACI/EurMcwi (RGD), SS/JrHsdMcwi (MCW), SBH/Ygl (MCW), GH/OmrMcwi (MCW), FHL/EurMcwi (MCW), COP/CrCrl (MCW & UW), ACI/EurMcwi (MCW), LEW/Crl (2019)


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
19 42775209 42775210 A C snv HTX/Kyo (KyushuU), HWY/Slc (KyushuU), ZF (KyushuU)
19 42775228 42775229 G T snv ZF (KyushuU)
19 42775233 42775234 C T snv ZF (KyushuU)
19 42776433 42776434 G C snv KFRS3B/Kyo (KyushuU), ZF (KyushuU), DOB/Oda (KyushuU), BDIX/NemOda (KyushuU), F344/Jcl (KyushuU), BN/SsNSlc (KyushuU), SDLEF7/Barth (UDEL), Crl:SD (UDEL)
19 42780989 42780990 G A snv ZFDM (KyushuU), KFRS3B/Kyo (KyushuU), BDIX.Cg-Tal/NemOda (KyushuU), BDIX/NemOda (KyushuU), LEC/Tj (KyushuU), IS/Kyo (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305301 AgrOrtholog
BioCyc Gene G2FUF-5959 BioCyc
Ensembl Genes ENSRNOG00000018345 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000024753 ENTREZGENE
  ENSRNOP00000024753.6 UniProtKB/TrEMBL
  ENSRNOP00000087185.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024753 ENTREZGENE
  ENSRNOT00000024753.7 UniProtKB/TrEMBL
  ENSRNOT00000118958.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.300 UniProtKB/TrEMBL
InterPro 4Fe4S_Fe-S-bd UniProtKB/TrEMBL
  4Fe4S_Fe_S_CS UniProtKB/TrEMBL
  ABC_E UniProtKB/TrEMBL
  ABC_transporter-like UniProtKB/TrEMBL
  ABC_transporter_CS UniProtKB/TrEMBL
  ATPase_AAA+_core UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  RLI_dom_1 UniProtKB/TrEMBL
  RNaseL-inhib_metal-bd_dom UniProtKB/TrEMBL
KEGG Report rno:361390 UniProtKB/TrEMBL
NCBI Gene 361390 ENTREZGENE
PANTHER PTHR19248 UniProtKB/TrEMBL
Pfam ABC_tran UniProtKB/TrEMBL
  Fer4 UniProtKB/TrEMBL
  RLI UniProtKB/TrEMBL
PhenoGen Abce1 PhenoGen
PRINTS ABCEFAMILY UniProtKB/TrEMBL
PROSITE 4FE4S_FER_1 UniProtKB/TrEMBL
  4FE4S_FER_2 UniProtKB/TrEMBL
  ABC_TRANSPORTER_1 UniProtKB/TrEMBL
  ABC_TRANSPORTER_2 UniProtKB/TrEMBL
SMART AAA UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8I6GEV9_RAT UniProtKB/TrEMBL
  D3ZD23 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Abce1  ATP binding cassette subfamily E member 1  Abce1  ATP-binding cassette, subfamily E (OABP), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-11-16 Abce1  ATP-binding cassette, subfamily E (OABP), member 1  Abce1  ATP-binding cassette, sub-family E (OABP), member 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Abce1  ATP-binding cassette, sub-family E (OABP), member 1  Abce1_predicted  ATP-binding cassette, sub-family E (OABP), member 1 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Abce1_predicted  ATP-binding cassette, sub-family E (OABP), member 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED