Lilrb3l (leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3-like) - Rat Genome Database
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Gene: Lilrb3l (leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3-like) Rattus norvegicus
Analyze
Symbol: Lilrb3l
Name: leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3-like
RGD ID: 1307219
Description: INTERACTS WITH acrylamide; bisphenol A; cobalt dichloride
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Ig-superfamily activating receptor; leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3; Lilrb3; LOC361493; paired Ig-like receptor-A1; paired Ig-like receptor-A2; paired Ig-like receptor-B; Pir-A1; Pir-A2; Pirb; six Ig-like domains/type I transmembrane
Orthologs:
No known orthologs. homologs ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0163,759,638 - 63,849,278 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl163,759,638 - 64,013,289 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0162,834,564 - 62,841,533 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4163,728,882 - 63,735,563 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1163,637,445 - 63,699,115 (-)NCBI
Celera163,080,980 - 63,149,417 (+)NCBICelera
Cytogenetic Map1q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:22395112  


Genomics

Position Markers
D3S3819  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01716,194,381 - 16,194,555NCBIRnor6.0
Rnor_6.0163,834,653 - 63,834,827NCBIRnor6.0
Rnor_5.01718,256,184 - 18,256,358UniSTSRnor5.0
Rnor_5.0162,826,908 - 62,827,082UniSTSRnor5.0
RGSC_v3.41721,762,784 - 21,762,958UniSTSRGSC3.4
RGSC_v3.4163,721,153 - 63,721,327UniSTSRGSC3.4
Celera1715,501,822 - 15,501,996UniSTS
Celera163,135,152 - 63,135,326UniSTS
Cytogenetic Map1q12UniSTS
Cytogenetic Map17p14UniSTS
RH132676  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0164,013,064 - 64,013,256NCBIRnor6.0
Rnor_6.0164,081,364 - 64,081,556NCBIRnor6.0
Rnor_5.0163,073,644 - 63,073,836UniSTSRnor5.0
Rnor_5.0163,005,319 - 63,005,511UniSTSRnor5.0
RGSC_v3.4163,819,393 - 63,819,585UniSTSRGSC3.4
Celera163,231,568 - 63,231,760UniSTS
Cytogenetic Map1q12UniSTS
RH 3.4 Map5804.4UniSTS
AU048958  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0162,882,079 - 62,882,199NCBIRnor5.0
Rnor_5.0162,840,425 - 62,840,537NCBIRnor5.0
Rnor_5.0162,962,251 - 62,962,371NCBIRnor5.0
RGSC_v3.4163,734,671 - 63,734,782UniSTSRGSC3.4
RGSC_v3.4163,776,326 - 63,776,445UniSTSRGSC3.4
Cytogenetic Map1q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1164407321Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)125439386904217Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1565577285706974Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11131448975844121Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)11131448983657083Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11131448983657083Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11131448983657083Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11131448983657083Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11131448983657083Rat
724520Bp145Blood pressure QTL 1452.10.0024arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12107930566079305Rat
1357400Bw62Body weight QTL624.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)12340642868406428Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123406428108057505Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)12429779978748000Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)125951907130917265Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13148945479689689Rat
1354643Foco2Food consumption QTL 27.170.0001eating behavior trait (VT:0001431)food intake rate (CMO:0000427)13444911279449112Rat
1354599Bw29Body weight QTL 293.460.001body mass (VT:0001259)body weight (CMO:0000012)13444911279449112Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134993530173445086Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13537750894364229Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)13585416780854167Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13585416780854167Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13585416780854167Rat
1331732Srn4Serum renin concentration QTL 44.467renin activity (VT:0005581)plasma renin activity level (CMO:0000116)13603316579689689Rat
1331792Rf29Renal function QTL 294.589urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)13603316579689689Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14190724986907249Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143579208126240667Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143579208126240667Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143579208126240667Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143579208126240667Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143579208126240667Rat
1331778Rf28Renal function QTL 284.66urine potassium amount (VT:0010539)urine potassium excretion rate (CMO:0000761)14611346179689689Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)149147799156446783Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14954732883657083Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14957857794578577Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149578577169852184Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15052271494225616Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)15385134883657083Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15385134883657083Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)157761301104391981Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)158209327103209327Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)158354072161711996Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:25
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000059325
Prediction methods:Miranda, Rnahybrid
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


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001037357 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006228032 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006228033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006228034 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017589346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07001996 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07001997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07001998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07001999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07071875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01003701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01003702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01003703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC126217 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF169636 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF169637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF169638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474101 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: NM_001037357   ⟹   NP_001032434
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0163,759,638 - 63,849,063 (+)NCBI
Rnor_5.0162,834,564 - 62,841,533 (+)NCBI
RGSC_v3.4163,728,882 - 63,735,563 (+)RGD
Celera163,080,980 - 63,149,417 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006228032   ⟹   XP_006228094
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0163,842,340 - 63,849,278 (+)NCBI
Rnor_5.0162,834,564 - 62,841,533 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006228033   ⟹   XP_006228095
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0163,842,340 - 63,848,880 (+)NCBI
Rnor_5.0162,834,564 - 62,841,533 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006228034   ⟹   XP_006228096
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0163,842,340 - 63,849,278 (+)NCBI
Rnor_5.0162,834,564 - 62,841,533 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017589346   ⟹   XP_017444835
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0163,842,340 - 63,849,278 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001032434   ⟸   NM_001037357
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_006228094   ⟸   XM_006228032
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006228095   ⟸   XM_006228033
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006228096   ⟸   XM_006228034
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_017444835   ⟸   XM_017589346
- Peptide Label: isoform X1
- UniProtKB: D3ZVK8 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
Ig-like

Transcriptome

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

Promoters
RGD ID:13689654
Promoter ID:EPDNEW_R179
Type:single initiation site
Name:Lilrb3a_1
Description:leukocyte immunoglobulin-like receptor, subfamily B , member3A
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_6.0163,759,617 - 63,759,677EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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
1 62835101 62835102 T C snv GH/OmrMcwi (MCW), SBH/Ygl (MCW)
1 62835138 62835139 G A snv SBH/Ygl (MCW), GH/OmrMcwi (MCW)
1 62835144 62835145 A C snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62835147 62835148 C T snv GH/OmrMcwi (MCW), SBH/Ygl (MCW)
1 62835185 62835186 A T snv IS/Kyo (KyushuU), GH/OmrMcwi (MCW), SBH/Ygl (MCW)
1 62835299 62835300 C A snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU)
1 62835301 62835302 G C snv IS/Kyo (KyushuU), HTX/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62835318 62835319 A T snv LEC/Tj (KyushuU)
1 62835479 62835480 T G snv SDLEF7/Barth (UDEL)
1 62835518 62835519 C T snv HTX/Kyo (KyushuU)
1 62835592 62835593 A C snv LEC/Tj (KyushuU)
1 62835624 62835625 C A snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62835661 62835662 T G snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62835668 62835669 G A snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU)
1 62836788 62836789 G A snv LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), IS-Tlk/Kyo (KyushuU), WKY/NCrl (KNAW), WKY/NHsd (KNAW), SDLEF7/Barth (UDEL), WKY/Gcrc (KNAW)
1 62836819 62836820 G A snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62836826 62836827 A T snv IS/Kyo (KyushuU)
1 62836888 62836889 A G snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU), SDLEF7/Barth (UDEL)
1 62836916 62836917 T G snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62836919 62836920 C T snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62836927 62836928 C G snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62836988 62836989 C A snv HTX/Kyo (KyushuU)
1 62837175 62837176 C G snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU)
1 62837278 62837279 C G snv IS-Tlk/Kyo (KyushuU)
1 62837380 62837381 T A snv SBH/Ygl (MCW), SDLEF7/Barth (UDEL)
1 62837390 62837391 C A snv SBH/Ygl (MCW)
1 62837410 62837411 C A snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62837416 62837417 G A snv HTX/Kyo (KyushuU)
1 62837419 62837420 C T snv IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU), SDLEF7/Barth (UDEL)
1 62837663 62837664 G T snv GH/OmrMcwi (MCW), SBH/Ygl (MCW), LEC/Tj (KyushuU), IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), SDLEF7/Barth (UDEL)
1 62837714 62837715 C A snv GH/OmrMcwi (MCW), SBH/Ygl (MCW)
1 62837714 62837715 C G snv LEC/Tj (KyushuU)
1 62837716 62837717 G A snv WKY/NCrl (KNAW), IS-Tlk/Kyo (KyushuU), IS/Kyo (KyushuU), SDLEF7/Barth (UDEL), WN/N (KNAW), WKY/NHsd (KNAW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW)
1 62837768 62837769 C T snv LEC/Tj (KyushuU), GH/OmrMcwi (MCW), SBH/Ygl (MCW)
1 62837791 62837792 G A snv IS-Tlk/Kyo (KyushuU), SDLEF7/Barth (UDEL), IS/Kyo (KyushuU)
1 62837798 62837799 T A snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62837803 62837804 T A snv IS/Kyo (KyushuU), SDLEF7/Barth (UDEL), IS-Tlk/Kyo (KyushuU)
1 62837830 62837831 C A snv LEC/Tj (KyushuU)
1 62837834 62837835 C G snv SDLEF7/Barth (UDEL), IS/Kyo (KyushuU), HTX/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62837855 62837856 G A snv LEC/Tj (KyushuU)
1 62837857 62837858 T C snv SDLEF7/Barth (UDEL), IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), HTX/Kyo (KyushuU)
1 62837858 62837859 A C snv HTX/Kyo (KyushuU)
1 62837866 62837867 C G snv HTX/Kyo (KyushuU)
1 62837868 62837869 C A snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU)
1 62837870 62837871 C T snv IS/Kyo (KyushuU), SDLEF7/Barth (UDEL), IS-Tlk/Kyo (KyushuU)
1 62837872 62837873 A G snv LEC/Tj (KyushuU)
1 62837873 62837874 C A snv LEC/Tj (KyushuU)
1 62837899 62837900 G T snv IS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), SDLEF7/Barth (UDEL)
1 62837912 62837913 C T snv IS/Kyo (KyushuU), SDLEF7/Barth (UDEL), IS-Tlk/Kyo (KyushuU)
1 62837918 62837919 A T snv LEC/Tj (KyushuU)
1 62837938 62837939 C G snv SDLEF7/Barth (UDEL)
1 62838253 62838254 A T snv SDLEF7/Barth (UDEL)
1 62838280 62838281 G A snv WN/N (KNAW), WKY/N (KNAW), LN/MavRrrc (KNAW)
1 62838309 62838310 A T snv SDLEF7/Barth (UDEL)
1 62838378 62838379 C A snv SDLEF7/Barth (UDEL)
1 62838408 62838409 T G snv SBH/Ygl (MCW), GH/OmrMcwi (MCW)
1 62838447 62838448 G T snv LEC/Tj (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307219 AgrOrtholog
Ensembl Genes ENSRNOG00000053260 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000070170 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070789 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000080799 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080820 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Immunoglobulin UniProtKB/TrEMBL
NCBI Gene 361493 ENTREZGENE
Pfam Ig_2 UniProtKB/TrEMBL
  PF00047 UniProtKB/TrEMBL
PhenoGen Lilrb3l PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
SMART IGc2 UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniGene Rn.198481 ENTREZGENE
UniProt A0A0G2JYU1_RAT UniProtKB/TrEMBL
  D3ZVK8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-17 Lilrb3l  leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3-like  Lilrb3  leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Lilrb3  leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3  Lilrb3_predicted  leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Lilrb3_predicted  leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED