Agbl3 (AGBL carboxypeptidase 3) - Rat Genome Database
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Gene: Agbl3 (AGBL carboxypeptidase 3) Rattus norvegicus
Analyze
Symbol: Agbl3
Name: AGBL carboxypeptidase 3
RGD ID: 1561995
Description: Predicted to have metallocarboxypeptidase activity. Predicted to be involved in protein side chain deglutamylation. Predicted to localize to cytosol. Orthologous to human AGBL3 (ATP/GTP binding protein like 3); INTERACTS WITH bisphenol A; vinclozolin; 1,2-dichloroethane (ortholog).
Type: protein-coding
RefSeq Status: MODEL
Also known as: ATP/GTP binding protein-like 3; cytosolic carboxypeptidase 3; LOC500076; RGD1561995; similar to hypothetical protein LOC340351
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2463,448,789 - 63,535,538 (+)NCBI
Rnor_6.0 Ensembl462,299,044 - 62,376,533 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0462,293,158 - 62,377,740 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0462,030,266 - 62,108,476 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4462,167,594 - 62,256,297 (+)NCBIRGSC3.4rn4RGSC3.4
Celera458,499,976 - 58,584,581 (+)NCBICelera
Cytogenetic Map4q22NCBI
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
cytosol  (IEA)

Molecular Function

References

Additional References at PubMed
PMID:17244817   PMID:25103237  


Genomics

Comparative Map Data
Agbl3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2463,448,789 - 63,535,538 (+)NCBI
Rnor_6.0 Ensembl462,299,044 - 62,376,533 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0462,293,158 - 62,377,740 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0462,030,266 - 62,108,476 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4462,167,594 - 62,256,297 (+)NCBIRGSC3.4rn4RGSC3.4
Celera458,499,976 - 58,584,581 (+)NCBICelera
Cytogenetic Map4q22NCBI
AGBL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7134,986,508 - 135,147,963 (+)EnsemblGRCh38hg38GRCh38
GRCh387134,986,139 - 135,135,782 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh377134,671,259 - 134,820,530 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 367134,321,802 - 134,386,337 (+)NCBINCBI36hg18NCBI36
Celera7129,408,666 - 129,558,005 (+)NCBI
Cytogenetic Map7q33NCBI
HuRef7128,973,846 - 129,123,181 (+)NCBIHuRef
CHM1_17134,605,192 - 134,754,487 (+)NCBICHM1_1
CRA_TCAGchr7v27134,015,578 - 134,164,887 (+)NCBI
Agbl3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39634,755,249 - 34,837,874 (+)NCBIGRCm39mm39
GRCm38634,780,432 - 34,860,939 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl634,780,432 - 34,859,459 (+)EnsemblGRCm38mm10GRCm38
MGSCv37634,730,432 - 34,807,932 (+)NCBIGRCm37mm9NCBIm37
MGSCv36634,711,027 - 34,735,783 (+)NCBImm8
Celera634,780,877 - 34,858,071 (+)NCBICelera
Cytogenetic Map6B1NCBI
Agbl3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554947,498,524 - 7,568,888 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554947,497,964 - 7,570,137 (-)NCBIChiLan1.0ChiLan1.0
AGBL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17139,456,539 - 139,604,544 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v07126,951,316 - 127,100,608 (+)NCBIMhudiblu_PPA_v0panPan3
AGBL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1613,020,927 - 13,077,434 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11613,018,349 - 13,076,435 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Agbl3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936579789,888 - 860,201 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
AGBL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11814,163,354 - 14,265,504 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21814,970,743 - 15,071,886 (-)NCBISscrofa10.2Sscrofa10.2susScr3
AGBL3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121103,683,209 - 103,806,270 (+)NCBI
ChlSab1.1 Ensembl21103,684,067 - 103,805,753 (+)Ensembl

Position Markers
RH129130  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0462,302,818 - 62,302,999NCBIRnor6.0
Rnor_5.0462,034,749 - 62,034,930UniSTSRnor5.0
RGSC_v3.4462,169,966 - 62,170,147UniSTSRGSC3.4
Celera458,509,636 - 58,509,817UniSTS
RH 3.4 Map4375.2UniSTS
Cytogenetic Map4q22UniSTS
RH143597  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0462,298,487 - 62,298,647NCBIRnor6.0
Rnor_5.0462,030,418 - 62,030,578UniSTSRnor5.0
RGSC_v3.4462,165,635 - 62,165,795UniSTSRGSC3.4
Celera458,505,305 - 58,505,465UniSTS
Cytogenetic Map4q22UniSTS
BE106741  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0462,364,576 - 62,364,748NCBIRnor6.0
Rnor_5.0462,096,548 - 62,096,720UniSTSRnor5.0
RGSC_v3.4462,232,464 - 62,232,636UniSTSRGSC3.4
Celera458,571,394 - 58,571,566UniSTS
RH 3.4 Map4400.21UniSTS
Cytogenetic Map4q22UniSTS
RH140956  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0462,376,112 - 62,376,291NCBIRnor6.0
Rnor_5.0462,108,084 - 62,108,263UniSTSRnor5.0
RGSC_v3.4462,244,000 - 62,244,179UniSTSRGSC3.4
Celera458,582,953 - 58,583,132UniSTS
RH 3.4 Map4393.9UniSTS
Cytogenetic Map4q22UniSTS
Agbl3  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0462,316,230 - 62,316,670NCBIRnor6.0
Rnor_5.0462,048,202 - 62,048,642UniSTSRnor5.0
RGSC_v3.4462,183,379 - 62,183,819UniSTSRGSC3.4
Celera458,523,050 - 58,523,490UniSTS
Cytogenetic Map4q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4304323179575658Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)43043231145254791Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4304401764915903Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)4734240492484039Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)47850904182171018Rat
10755501Bp390Blood pressure QTL 3902.5arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)423850384169318094Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42399172176238799Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42399172176238799Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)42463187469631874Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42665474981874227Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)429549895112807890Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43182556083531021Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43182556083531021Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43182556083531021Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)43427793299067150Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)436615599145611886Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)43768517573066691Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)43770327275345433Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)437703272115372927Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)43920822284208222Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)43920824784208247Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44241577787415777Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)443414605155469929Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)443414792146942075Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)443414792146942075Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)446898276145611886Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)449906054145611886Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)45532485779575658Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)45532485779575658Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)45532485779575658Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)45532485779575658Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)455324953148360954Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)455375865125671711Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45579156482134846Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45579156492484312Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45579183479557856Rat
1578657Bss12Bone structure and strength QTL 128.9femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)456092756101092756Rat
1578658Bss13Bone structure and strength QTL 138femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)456092756101092756Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)45710107792990863Rat
631671Iddm11Insulin dependent diabetes mellitus QTL 113.60.0012blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)45730707579578854Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)458166424103166424Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)458640017154427984Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)458640017154427984Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)46043912799066957Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)460439127113416139Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)461038901127777403Rat
7394826Bw126Body weight QTL 1260.002body mass (VT:0001259)body weight gain (CMO:0000420)46170810388565113Rat
8552807Vie4Viral induced encephalitis QTL 47.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)46170834183531021Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in pulse pressure (CMO:0001882)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in systolic blood pressure (CMO:0000747)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)percent change in mean arterial blood pressure (CMO:0002035)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)461708341113100992Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)461708341113100992Rat
2300179Bmd50Bone mineral density QTL 505.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)461975371106975371Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:252
Count of miRNA genes:111
Interacting mature miRNAs:120
Transcripts:ENSRNOT00000030090, ENSRNOT00000032077, ENSRNOT00000070879
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 appendage
High
Medium 10
Low 3 41 37 21 19 21 5 5 74 35 31 11 5
Below cutoff 2 20 20 20 3 5 3

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_006236277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006236278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762844 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017592971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108623 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108624 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108625 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108626 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108627 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108628 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108629 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005503510 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005503511 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC103335 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000032077   ⟹   ENSRNOP00000034021
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl462,299,044 - 62,376,533 (+)Ensembl
RefSeq Acc Id: XM_006224859   ⟹   XP_006224921
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera458,504,037 - 58,584,581 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006224860   ⟹   XP_006224922
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera458,504,038 - 58,572,392 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006236277   ⟹   XP_006236339
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,452,278 - 63,535,538 (+)NCBI
Rnor_6.0462,297,219 - 62,377,740 (+)NCBI
Rnor_5.0462,030,266 - 62,108,476 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006236278   ⟹   XP_006236340
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,794 - 63,522,608 (+)NCBI
Rnor_6.0462,297,220 - 62,365,574 (+)NCBI
Rnor_5.0462,030,266 - 62,108,476 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762844   ⟹   XP_008761066
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,452,278 - 63,535,538 (+)NCBI
Rnor_6.0462,297,219 - 62,377,740 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008775692   ⟹   XP_008773914
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera458,504,037 - 58,584,581 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008775693   ⟹   XP_008773915
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera458,499,976 - 58,584,581 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017592971   ⟹   XP_017448460
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,789 - 63,535,538 (+)NCBI
Rnor_6.0462,293,158 - 62,377,740 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039108622   ⟹   XP_038964550
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,452,278 - 63,535,538 (+)NCBI
RefSeq Acc Id: XM_039108623   ⟹   XP_038964551
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,790 - 63,520,349 (+)NCBI
RefSeq Acc Id: XM_039108624   ⟹   XP_038964552
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,790 - 63,520,610 (+)NCBI
RefSeq Acc Id: XM_039108625   ⟹   XP_038964553
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,791 - 63,512,716 (+)NCBI
RefSeq Acc Id: XM_039108626   ⟹   XP_038964554
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,791 - 63,508,425 (+)NCBI
RefSeq Acc Id: XM_039108627   ⟹   XP_038964555
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,794 - 63,492,987 (+)NCBI
RefSeq Acc Id: XM_039108628   ⟹   XP_038964556
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,793 - 63,490,167 (+)NCBI
RefSeq Acc Id: XM_039108629   ⟹   XP_038964557
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,792 - 63,492,987 (+)NCBI
RefSeq Acc Id: XR_005503510
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,791 - 63,508,428 (+)NCBI
RefSeq Acc Id: XR_005503511
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2463,448,794 - 63,494,794 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_006224921   ⟸   XM_006224859
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006224922   ⟸   XM_006224860
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006236339   ⟸   XM_006236277
- Peptide Label: isoform X1
- UniProtKB: D3ZNU5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006236340   ⟸   XM_006236278
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008773915   ⟸   XM_008775693
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008773914   ⟸   XM_008775692
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008761066   ⟸   XM_008762844
- Peptide Label: isoform X1
- UniProtKB: D3ZNU5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017448460   ⟸   XM_017592971
- Peptide Label: isoform X1
- UniProtKB: D3ZNU5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000034021   ⟸   ENSRNOT00000032077
RefSeq Acc Id: XP_038964552   ⟸   XM_039108624
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038964551   ⟸   XM_039108623
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038964553   ⟸   XM_039108625
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038964554   ⟸   XM_039108626
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038964557   ⟸   XM_039108629
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038964556   ⟸   XM_039108628
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038964555   ⟸   XM_039108627
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038964550   ⟸   XM_039108622
- Peptide Label: isoform X1
Protein Domains
Pepdidase_M14_N   Peptidase_M14

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
4 62106897 62106898 T G snv MR/N (KNAW), LE/Stm (SOLiD) (KNAW), ACI/EurMcwi (KNAW), BBDP/WorN (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), DA/BklArbNsi (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), LE/Stm (Illumina) (KNAW), ACI/N (KNAW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
4 62374925 62374926 T G snv ACI/N (MCW), WKY/N (MCW), MR/N (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561995 AgrOrtholog
Ensembl Genes ENSRNOG00000010397 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000034021 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000032077 UniProtKB/TrEMBL
InterPro Pepdidase_M14_N UniProtKB/TrEMBL
  Peptidase_M14 UniProtKB/TrEMBL
KEGG Report rno:500076 UniProtKB/TrEMBL
NCBI Gene 500076 ENTREZGENE
Pfam Pepdidase_M14_N UniProtKB/TrEMBL
  Peptidase_M14 UniProtKB/TrEMBL
PhenoGen Agbl3 PhenoGen
UniProt D3ZNU5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-02-18 Agbl3  AGBL carboxypeptidase 3  Agbl3  ATP/GTP binding protein-like 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-29 Agbl3  ATP/GTP binding protein-like 3  RGD1561995_predicted  similar to hypothetical protein LOC340351 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1561995_predicted  similar to hypothetical protein LOC340351 (predicted)  LOC500076  similar to hypothetical protein LOC340351  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500076  similar to hypothetical protein LOC340351      Symbol and Name status set to provisional 70820 PROVISIONAL