Prrc2b (proline-rich coiled-coil 2B) - Rat Genome Database

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Gene: Prrc2b (proline-rich coiled-coil 2B) Rattus norvegicus
Analyze
Symbol: Prrc2b
Name: proline-rich coiled-coil 2B
RGD ID: 1595906
Description: Predicted to be involved in cell differentiation and in utero embryonic development. Orthologous to human PRRC2B (proline rich coiled-coil 2B); INTERACTS WITH amphetamine; bisphenol A; C60 fullerene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Bat2l; HLA-B associated transcript 2-like; LOC296637; protein BAT2-like 1; similar to HLA-B associated transcript-2 isoform a
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2315,433,357 - 15,519,105 (+)NCBI
Rnor_6.0 Ensembl311,198,401 - 11,248,558 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0311,165,687 - 11,252,401 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0316,516,495 - 16,601,271 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4311,291,980 - 11,347,131 (+)NCBIRGSC3.4rn4RGSC3.4
Celera310,209,828 - 10,263,975 (+)NCBICelera
Cytogenetic Map3p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

Additional References at PubMed
PMID:8889548   PMID:22658674   PMID:22681889   PMID:24466597   PMID:27996060  


Genomics

Comparative Map Data
Prrc2b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2315,433,357 - 15,519,105 (+)NCBI
Rnor_6.0 Ensembl311,198,401 - 11,248,558 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0311,165,687 - 11,252,401 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0316,516,495 - 16,601,271 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4311,291,980 - 11,347,131 (+)NCBIRGSC3.4rn4RGSC3.4
Celera310,209,828 - 10,263,975 (+)NCBICelera
Cytogenetic Map3p12NCBI
PRRC2B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl9131,373,636 - 131,500,197 (+)EnsemblGRCh38hg38GRCh38
GRCh389131,373,651 - 131,500,193 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh379134,249,038 - 134,375,580 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369133,295,298 - 133,365,399 (+)NCBINCBI36hg18NCBI36
Build 349131,383,478 - 131,405,135NCBI
Celera9104,845,673 - 104,915,750 (+)NCBI
Cytogenetic Map9q34.13NCBI
HuRef9103,799,970 - 103,870,018 (+)NCBIHuRef
CHM1_19134,454,987 - 134,525,048 (+)NCBICHM1_1
Prrc2b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39232,041,002 - 32,124,549 (+)NCBIGRCm39mm39
GRCm39 Ensembl232,041,094 - 32,124,549 (+)Ensembl
GRCm38232,151,031 - 32,234,537 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl232,151,082 - 32,234,537 (+)EnsemblGRCm38mm10GRCm38
MGSCv37232,006,668 - 32,090,057 (+)NCBIGRCm37mm9NCBIm37
MGSCv36231,973,166 - 32,056,534 (+)NCBImm8
Celera231,855,341 - 31,938,874 (+)NCBICelera
Cytogenetic Map2BNCBI
Prrc2b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555131,138,292 - 1,183,665 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555131,137,099 - 1,187,724 (+)NCBIChiLan1.0ChiLan1.0
PRRC2B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19131,138,102 - 131,262,898 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9131,193,641 - 131,262,894 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v09102,516,585 - 102,622,588 (+)NCBIMhudiblu_PPA_v0panPan3
PRRC2B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1952,642,916 - 52,702,203 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl952,528,970 - 52,702,203 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha951,905,994 - 51,993,363 (-)NCBI
ROS_Cfam_1.0953,541,288 - 53,629,078 (-)NCBI
UMICH_Zoey_3.1952,319,084 - 52,406,351 (-)NCBI
UNSW_CanFamBas_1.0952,638,033 - 52,725,825 (-)NCBI
UU_Cfam_GSD_1.0952,732,544 - 52,820,102 (-)NCBI
Prrc2b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947198,402,512 - 198,480,665 (+)NCBI
SpeTri2.0NW_00493648718,196,673 - 18,247,725 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRRC2B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1271,336,821 - 271,430,936 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11271,336,780 - 271,430,936 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21305,377,250 - 305,439,305 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRRC2B
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1126,643,975 - 6,767,834 (-)NCBI
ChlSab1.1 Ensembl126,646,394 - 6,713,044 (-)Ensembl
Prrc2b
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247604,512,387 - 4,579,759 (-)NCBI

Position Markers
RH128685  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0311,251,244 - 11,252,267NCBIRnor6.0
Rnor_5.0316,600,114 - 16,601,137UniSTSRnor5.0
RGSC_v3.4311,346,004 - 11,347,027UniSTSRGSC3.4
Celera310,262,818 - 10,263,841UniSTS
RH 3.4 Map362.4UniSTS
Cytogenetic Map3p11UniSTS
RH128944  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0311,250,433 - 11,250,612NCBIRnor6.0
Rnor_5.0316,599,303 - 16,599,482UniSTSRnor5.0
RGSC_v3.4311,345,193 - 11,345,372UniSTSRGSC3.4
Celera310,262,007 - 10,262,186UniSTS
RH 3.4 Map365.7UniSTS
Cytogenetic Map3p11UniSTS
BE120723  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0311,209,730 - 11,209,879NCBIRnor6.0
Rnor_5.0316,558,577 - 16,558,726UniSTSRnor5.0
Celera310,221,288 - 10,221,437UniSTS
RH 3.4 Map361.4UniSTS
Cytogenetic Map3p11UniSTS
RH140765  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0311,246,108 - 11,246,285NCBIRnor6.0
Rnor_5.0316,594,978 - 16,595,155UniSTSRnor5.0
RGSC_v3.4311,340,867 - 11,341,044UniSTSRGSC3.4
Celera310,257,682 - 10,257,859UniSTS
RH 3.4 Map365.2UniSTS
Cytogenetic Map3p11UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3125786001Rat
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3128136884Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3128500807Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3128500807Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3132972944Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3137891710Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3139773425Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3195176874Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3263142133477544Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3263142148562146Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3328592928136884Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3328592928136884Rat
8693641Alc30Alcohol consumption QTL 3020.739drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)3565463925105730Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)3600074834394365Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)3600074851687917Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)3600074851687917Rat
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)3600086634394121Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)3600086634394121Rat
1558657Cm43Cardiac mass QTL 436.60.0000000293heart mass (VT:0007028)heart wet weight (CMO:0000069)3600086634394121Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31009408193415837Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31011931879772001Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)310639528127023997Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:154
Count of miRNA genes:116
Interacting mature miRNAs:126
Transcripts:ENSRNOT00000013546, ENSRNOT00000066368
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 3 39 44 28 19 28 6 9 74 35 34 11 6
Low 4 13 13 13 2 2 7 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001134518 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001371270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224345 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224346 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224347 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224348 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006224349 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761782 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761783 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761785 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008761786 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008775321 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104754 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104759 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BQ196229 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212132 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000013546   ⟹   ENSRNOP00000013546
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl311,207,542 - 11,248,469 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000066368   ⟹   ENSRNOP00000063117
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl311,198,401 - 11,248,558 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088576   ⟹   ENSRNOP00000075535
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl311,198,401 - 11,245,216 (+)Ensembl
RefSeq Acc Id: NM_001134518   ⟹   NP_001127990
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,465,294 - 15,519,075 (+)NCBI
RefSeq Acc Id: NM_001371270   ⟹   NP_001358199
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,465,299 - 15,519,105 (+)NCBI
RefSeq Acc Id: XM_006224345   ⟹   XP_006224407
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera310,210,028 - 10,263,975 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006224346   ⟹   XP_006224408
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera310,210,028 - 10,263,975 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006224347   ⟹   XP_006224409
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera310,210,028 - 10,263,975 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006224348   ⟹   XP_006224410
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera310,210,031 - 10,263,975 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006224349   ⟹   XP_006224411
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera310,210,031 - 10,263,975 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006234005   ⟹   XP_006234067
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,433,357 - 15,519,105 (+)NCBI
Rnor_6.0311,165,687 - 11,252,401 (+)NCBI
Rnor_5.0316,516,495 - 16,601,271 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761782   ⟹   XP_008760004
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0311,198,023 - 11,252,401 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761783   ⟹   XP_008760005
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0311,198,223 - 11,252,401 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761784   ⟹   XP_008760006
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0311,198,223 - 11,252,401 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761785   ⟹   XP_008760007
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0311,198,226 - 11,252,401 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008761786   ⟹   XP_008760008
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0311,198,226 - 11,252,401 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008775321   ⟹   XP_008773543
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera310,209,828 - 10,263,975 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104754   ⟹   XP_038960682
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,433,628 - 15,517,355 (+)NCBI
RefSeq Acc Id: XM_039104755   ⟹   XP_038960683
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,433,357 - 15,519,105 (+)NCBI
RefSeq Acc Id: XM_039104756   ⟹   XP_038960684
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,433,357 - 15,519,105 (+)NCBI
RefSeq Acc Id: XM_039104757   ⟹   XP_038960685
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,433,357 - 15,517,355 (+)NCBI
RefSeq Acc Id: XM_039104758   ⟹   XP_038960686
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,433,357 - 15,517,359 (+)NCBI
RefSeq Acc Id: XM_039104759   ⟹   XP_038960687
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2315,433,357 - 15,519,105 (+)NCBI
Reference Sequences
RefSeq Acc Id: XP_006224407   ⟸   XM_006224345
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006224408   ⟸   XM_006224346
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006224410   ⟸   XM_006224348
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006224409   ⟸   XM_006224347
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006224411   ⟸   XM_006224349
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006234067   ⟸   XM_006234005
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008773543   ⟸   XM_008775321
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760004   ⟸   XM_008761782
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760006   ⟸   XM_008761784
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008760005   ⟸   XM_008761783
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008760007   ⟸   XM_008761785
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008760008   ⟸   XM_008761786
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: ENSRNOP00000063117   ⟸   ENSRNOT00000066368
RefSeq Acc Id: ENSRNOP00000013546   ⟸   ENSRNOT00000013546
RefSeq Acc Id: ENSRNOP00000075535   ⟸   ENSRNOT00000088576
RefSeq Acc Id: XP_038960684   ⟸   XM_039104756
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038960683   ⟸   XM_039104755
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038960687   ⟸   XM_039104759
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038960686   ⟸   XM_039104758
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038960685   ⟸   XM_039104757
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038960682   ⟸   XM_039104754
- Peptide Label: isoform X1
RefSeq Acc Id: NP_001127990   ⟸   NM_001134518
- Peptide Label: isoform 2
RefSeq Acc Id: NP_001358199   ⟸   NM_001371270
- Peptide Label: isoform 1
Protein Domains
BAT2_N

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
3 16558774 16558775 C G snv SHRSP/Gcrc (KNAW), LEC/Tj (KyushuU), IS-Tlk/Kyo (KyushuU), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), DOB/Oda (KyushuU), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), Crl:SD (UDEL), IS/Kyo (KyushuU), LE/Stm (KyushuU)
3 16586406 16586407 C A snv COP/CrCrl (MCW & UW)
3 16588532 16588533 C T snv COP/CrCrl (MCW & UW)
3 16597379 16597380 G A snv COP/CrCrl (MCW & UW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 11209927 11209928 C G snv SHR/NHsd (RGD), SHRSP/Gcrc (RGD), LE/Stm (RGD)
3 11235449 11235450 A G snv M520/N (MCW), ACI/N (MCW), Buf/N (MCW)
3 11237559 11237560 C A snv COP/CrCrl (MCW & UW), WKY/N (MCW)
3 11237868 11237869 C T snv WKY/N (MCW)
3 11239329 11239330 C G snv WKY/N (MCW)
3 11239621 11239622 C A snv COP/CrCrl (MCW & UW)
3 11239662 11239663 C T snv WKY/N (MCW), COP/CrCrl (MCW & UW)
3 11241678 11241679 C T snv COP/CrCrl (MCW & UW)
3 11241679 11241680 C G snv COP/CrCrl (MCW & UW)
3 11241693 11241694 A T snv COP/CrCrl (MCW & UW), WKY/N (MCW)
3 11241738 11241739 C T snv WKY/NHsd (RGD)
3 11244358 11244359 T A snv WKY/Gcrc (RGD)
3 11244376 11244377 G C snv WKY/NHsd (RGD), WKY/Gcrc (RGD)
3 11245196 11245197 C A snv SHR/NHsd (RGD), WKY/Gcrc (RGD), COP/CrCrl (MCW & UW)
3 11247204 11247205 G A snv COP/CrCrl (MCW & UW), SHRSP/Gcrc (RGD), WKY/NHsd (RGD)
3 11248503 11248504 T A snv WKY/Gcrc (RGD), COP/CrCrl (MCW & UW), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), WKY/NHsd (RGD)
3 11248509 11248510 G A snv SHRSP/Gcrc (RGD), COP/CrCrl (MCW & UW), WKY/NHsd (RGD), WKY/Gcrc (RGD)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1595906 AgrOrtholog
Ensembl Genes ENSRNOG00000010217 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013546 UniProtKB/TrEMBL
  ENSRNOP00000063117 UniProtKB/TrEMBL
  ENSRNOP00000075535 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013546 UniProtKB/TrEMBL
  ENSRNOT00000066368 UniProtKB/TrEMBL
  ENSRNOT00000088576 UniProtKB/TrEMBL
InterPro BAT2_N UniProtKB/TrEMBL
  PRRC2 UniProtKB/TrEMBL
NCBI Gene 296637 ENTREZGENE
PANTHER PTHR14038 UniProtKB/TrEMBL
Pfam BAT2_N UniProtKB/TrEMBL
PhenoGen Prrc2b PhenoGen
UniProt A0A0G2KAU9_RAT UniProtKB/TrEMBL
  D3ZY45_RAT UniProtKB/TrEMBL
  D3ZZ51_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-07-28 Prrc2b  proline-rich coiled-coil 2B  Bat2l  HLA-B associated transcript 2-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-12-15 Bat2l  HLA-B associated transcript 2-like  LOC296637  similar to HLA-B associated transcript-2 isoform a  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC296637  similar to HLA-B associated transcript-2 isoform a      Symbol and Name status set to provisional 70820 PROVISIONAL