Pitpnb (phosphatidylinositol transfer protein, beta) - Rat Genome Database

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Gene: Pitpnb (phosphatidylinositol transfer protein, beta) Rattus norvegicus
Analyze
Symbol: Pitpnb
Name: phosphatidylinositol transfer protein, beta
RGD ID: 620143
Description: Enables phospholipid binding activity and phospholipid transporter activity. Involved in phospholipid transport. Located in Golgi membrane and endoplasmic reticulum membrane. Orthologous to human PITPNB (phosphatidylinositol transfer protein beta); INTERACTS WITH aconitine; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: phosphatidylinositol transfer protein beta isoform; phosphotidylinositol transfer protein, beta; PI-TP-beta; ptdIns transfer protein beta; ptdInsTP beta
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21245,249,308 - 45,298,388 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1245,249,333 - 45,298,314 (-)Ensembl
Rnor_6.01251,279,194 - 51,341,752 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1251,280,150 - 51,341,716 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01253,020,763 - 53,083,078 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41245,386,041 - 45,434,744 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11245,249,428 - 45,298,132 (-)NCBI
Celera1246,815,703 - 46,863,897 (-)NCBICelera
RH 3.4 Map12811.51RGD
Cytogenetic Map12q16NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Dynamics of lipid transfer by phosphatidylinositol transfer proteins in cells. Shadan S, etal., Traffic. 2008 Sep;9(10):1743-56. doi: 10.1111/j.1600-0854.2008.00794.x. Epub 2008 Jul 9.
8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
9. Cloning of a cDNA encoding a second phosphatidylinositol transfer protein of rat brain by complementation of the yeast sec14 mutation. Tanaka S and Hosaka K, J Biochem (Tokyo) 1994 May;115(5):981-4.
10. Structure of PITPbeta in complex with phosphatidylcholine: comparison of structure and lipid transfer to other PITP isoforms. Vordtriede PB, etal., Biochemistry. 2005 Nov 15;44(45):14760-71.
Additional References at PubMed
PMID:11907258   PMID:15489334   PMID:16779671   PMID:16780419   PMID:23376485  


Genomics

Comparative Map Data
Pitpnb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21245,249,308 - 45,298,388 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1245,249,333 - 45,298,314 (-)Ensembl
Rnor_6.01251,279,194 - 51,341,752 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1251,280,150 - 51,341,716 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01253,020,763 - 53,083,078 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41245,386,041 - 45,434,744 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11245,249,428 - 45,298,132 (-)NCBI
Celera1246,815,703 - 46,863,897 (-)NCBICelera
RH 3.4 Map12811.51RGD
Cytogenetic Map12q16NCBI
PITPNB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382227,851,669 - 27,919,256 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2227,851,669 - 27,920,134 (-)EnsemblGRCh38hg38GRCh38
GRCh372228,247,657 - 28,315,244 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362226,577,657 - 26,645,255 (-)NCBINCBI36hg18NCBI36
Build 342226,572,211 - 26,639,809NCBI
Celera2212,047,622 - 12,115,220 (-)NCBI
Cytogenetic Map22q12.1NCBI
HuRef2211,211,977 - 11,279,827 (-)NCBIHuRef
CHM1_12228,206,929 - 28,274,545 (-)NCBICHM1_1
T2T-CHM13v2.02228,313,107 - 28,380,672 (-)NCBI
Pitpnb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395111,478,563 - 111,536,225 (+)NCBIGRCm39mm39
GRCm39 Ensembl5111,478,629 - 111,536,225 (+)Ensembl
GRCm385111,330,697 - 111,388,359 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5111,330,763 - 111,388,359 (+)EnsemblGRCm38mm10GRCm38
MGSCv375111,759,783 - 111,817,379 (+)NCBIGRCm37mm9NCBIm37
MGSCv365111,571,066 - 111,628,662 (+)NCBImm8
Celera5108,458,102 - 108,515,847 (+)NCBICelera
Cytogenetic Map5FNCBI
Pitpnb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554552,211,870 - 2,275,118 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554552,210,019 - 2,275,206 (-)NCBIChiLan1.0ChiLan1.0
PITPNB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12226,622,957 - 26,690,509 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2226,624,899 - 26,685,588 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0228,903,075 - 8,970,712 (-)NCBIMhudiblu_PPA_v0panPan3
PITPNB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12621,304,464 - 21,369,221 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2621,306,217 - 21,369,153 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2621,175,308 - 21,240,063 (-)NCBI
ROS_Cfam_1.02621,671,155 - 21,735,940 (-)NCBI
ROS_Cfam_1.0 Ensembl2621,661,087 - 21,735,913 (-)Ensembl
UMICH_Zoey_3.12621,388,919 - 21,453,617 (-)NCBI
UNSW_CanFamBas_1.02621,644,580 - 21,709,555 (-)NCBI
UU_Cfam_GSD_1.02621,713,376 - 21,778,146 (-)NCBI
Pitpnb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118113,712,480 - 113,775,567 (+)NCBI
SpeTri2.0NW_0049366572,095,140 - 2,158,184 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PITPNB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1445,185,451 - 45,250,084 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11445,185,705 - 45,250,089 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21448,079,115 - 48,143,553 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PITPNB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11910,758,359 - 10,826,821 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1910,761,589 - 10,821,852 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666045115,293,666 - 115,362,179 (+)NCBIVero_WHO_p1.0
Pitpnb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247474,172,948 - 4,235,501 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
AI256223  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21245,250,417 - 45,250,500 (+)MAPPERmRatBN7.2
mRatBN7.24181,877,696 - 181,877,779 (+)MAPPERmRatBN7.2
Rnor_6.04183,390,716 - 183,390,798NCBIRnor6.0
Rnor_6.01251,280,304 - 51,280,386NCBIRnor6.0
Rnor_5.04247,521,603 - 247,521,685UniSTSRnor5.0
Rnor_5.01253,021,873 - 53,021,955UniSTSRnor5.0
RGSC_v3.41245,387,148 - 45,387,230UniSTSRGSC3.4
Celera1246,816,810 - 46,816,892UniSTS
Celera4170,345,593 - 170,345,675UniSTS
Cytogenetic Map12q16UniSTS
RH127849  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21245,249,451 - 45,249,631 (+)MAPPERmRatBN7.2
mRatBN7.24181,876,695 - 181,876,875 (+)MAPPERmRatBN7.2
Rnor_6.04183,389,715 - 183,389,894NCBIRnor6.0
Rnor_6.01251,279,338 - 51,279,517NCBIRnor6.0
Rnor_5.04247,520,602 - 247,520,781UniSTSRnor5.0
Rnor_5.01253,020,907 - 53,021,086UniSTSRnor5.0
RGSC_v3.41245,386,182 - 45,386,361UniSTSRGSC3.4
Celera1246,815,844 - 46,816,023UniSTS
Celera4170,344,592 - 170,344,771UniSTS
Cytogenetic Map12q16UniSTS
RH130201  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21245,250,424 - 45,250,611 (+)MAPPERmRatBN7.2
Rnor_6.01251,280,311 - 51,280,497NCBIRnor6.0
Rnor_5.01253,021,880 - 53,022,066UniSTSRnor5.0
RGSC_v3.41245,387,155 - 45,387,341UniSTSRGSC3.4
Celera1246,816,817 - 46,817,003UniSTS
Cytogenetic Map12q16UniSTS
RH142288  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21245,249,428 - 45,249,628 (+)MAPPERmRatBN7.2
Rnor_6.01251,279,315 - 51,279,514NCBIRnor6.0
Rnor_5.01253,020,884 - 53,021,083UniSTSRnor5.0
RGSC_v3.41245,386,159 - 45,386,358UniSTSRGSC3.4
Celera1246,815,821 - 46,816,020UniSTS
RH 3.4 Map12811.51UniSTS
Cytogenetic Map12q16UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121235161946669029Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121281238546669029Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121281238546669029Rat
1549902Bp269Blood pressure QTL 269arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)121318273646669029Rat
1549912Bp268Blood pressure QTL 268arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)101318273646669029Rat
2302060Pia37Pristane induced arthritis QTL 376.10.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)121319815746669029Rat
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)121914436246669029Rat
61324Eae5Experimental allergic encephalomyelitis QTL 514nervous system integrity trait (VT:0010566)percentage of study population developing relapsing-remitting experimental autoimmune encephalomyelitis during a period of time (CMO:0001402)121961087046669029Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122032881946669029Rat
1300175Cm5Cardiac mass QTL 53.78heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)122806443345899022Rat
1600386Calcic2Intracellular calcium level QTL 20.001platelet physiology trait (VT:0005464)platelet intracellular calcium level (CMO:0000922)122806443346669029Rat
1300162Bp188Blood pressure QTL 1883.19arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123210317445899022Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:791
Count of miRNA genes:243
Interacting mature miRNAs:302
Transcripts:ENSRNOT00000052202, ENSRNOT00000066892
Prediction methods:Microtar, Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 38 11 8
Low 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000052202   ⟹   ENSRNOP00000050368
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1245,250,264 - 45,298,311 (-)Ensembl
Rnor_6.0 Ensembl1251,280,150 - 51,341,716 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000066892   ⟹   ENSRNOP00000058957
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1245,253,911 - 45,292,827 (-)Ensembl
Rnor_6.0 Ensembl1251,281,987 - 51,341,663 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115109   ⟹   ENSRNOP00000091407
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1245,253,333 - 45,292,827 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000115325   ⟹   ENSRNOP00000078649
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1245,249,333 - 45,298,314 (-)Ensembl
RefSeq Acc Id: NM_053742   ⟹   NP_446194
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21245,249,311 - 45,298,282 (-)NCBI
Rnor_6.01251,279,197 - 51,341,687 (-)NCBI
Rnor_5.01253,020,763 - 53,083,078 (-)NCBI
RGSC_v3.41245,386,041 - 45,434,744 (-)RGD
Celera1246,815,703 - 46,863,897 (-)RGD
Sequence:
RefSeq Acc Id: XM_006249522   ⟹   XP_006249584
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21245,249,308 - 45,298,388 (-)NCBI
Rnor_6.01251,279,194 - 51,341,751 (-)NCBI
Rnor_5.01253,020,763 - 53,083,078 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006249523   ⟹   XP_006249585
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21245,259,208 - 45,298,388 (-)NCBI
Rnor_6.01251,289,094 - 51,341,752 (-)NCBI
Rnor_5.01253,020,763 - 53,083,078 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039089021   ⟹   XP_038944949
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21245,249,308 - 45,298,337 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_446194   ⟸   NM_053742
- UniProtKB: P53812 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006249584   ⟸   XM_006249522
- Peptide Label: isoform X1
- UniProtKB: P53812 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006249585   ⟸   XM_006249523
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000058957   ⟸   ENSRNOT00000066892
RefSeq Acc Id: ENSRNOP00000050368   ⟸   ENSRNOT00000052202
RefSeq Acc Id: XP_038944949   ⟸   XM_039089021
- Peptide Label: isoform X3
RefSeq Acc Id: ENSRNOP00000078649   ⟸   ENSRNOT00000115325
RefSeq Acc Id: ENSRNOP00000091407   ⟸   ENSRNOT00000115109

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P53812-F1-model_v2 AlphaFold P53812 1-271 view protein structure

Transcriptome

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

Promoters
RGD ID:13698732
Promoter ID:EPDNEW_R9256
Type:multiple initiation site
Name:Pitpnb_1
Description:phosphatidylinositol transfer protein, beta
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_6.01251,341,716 - 51,341,776EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
12 51284451 51284452 G A snv WN/N (MCW), WKY/N (MCW)
12 51290532 51290533 G A snv SS/Jr (RGD), WN/N (2020), CDS, ACI/EurMcwi (MCW), COP/CrCrl (MCW & UW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), ACI/N (MCW), Buf/N (MCW), F344/NRrrc (MCW), M520/N (MCW), MR/N (MCW), WKY/N (MCW), WN/N (MCW), ACI/EurMcwi (RGD), F344/NCrl (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), GK/Ox (RGD), LE/Stm (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD), MHS/Gib (RGD), MNS/Gib (RGD), SBN/Ygl (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SR/JrHsd (RGD), SS/JrHsdMcwi (RGD), WAG/Rij (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), ACI/EurMcwi (2019), ACI/N (2020), BUF/N (2020), BXH2/CubMcwi (2020), DA/OlaHsd (2019), F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LEXF4/Stm (2020), LE/Stm (2019), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), M520/N (2020), MR/N (2020), MWF/Hsd (2019), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020), SS/JrHsdMcwi (2019), WAG/RijCrl (2020), WKY/NCrl (2019), WKY/N (2020)
12 51290655 51290656 G A snv WKY/NHsd (RGD)
12 51335066 51335067 T C snv BN/SsN (MCW)


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
12 53032101 53032102 G A snv ACI/EurMcwi (MCW), Crl:SD (UDEL), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), SS/JrHsdMcwi (MCW), WN/N (KNAW), LH/MavRrrc (KNAW), LL/MavRrrc (KNAW), LN/MavRrrc (KNAW), MHS/Gib (KNAW), MR/N (KNAW), SR/JrHsd (KNAW), SS/Jr (KNAW), SS/JrHsdMcwi (KNAW), WAG/Rij (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), BUF/N (KNAW), DA/BklArbNsi (KNAW), F344/NRrrc (SOLiD) (KNAW), F344/NCrl (KNAW), F344/NHsd (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW), LE/Stm (Illumina) (KNAW), LE/Stm (SOLiD) (KNAW), M520/N (KNAW), MNS/Gib (KNAW), SBN/Ygl (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), F344/NRrrc (Illumina) (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), LE/OrlBarth (UDEL), COP/CrCrl (MCW & UW)


Assembly: RGSC_v3.4
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
12 45391244 45391245 G A snv LCR/1Mco (UMich), HCR/2Mco (UMich), LCR/2Mco (UMich), BN/NHsdMcwi (KNAW), FHL/EurMcwi (MCW), HCR/1Mco (UMich)
12 45391295 45391296 G A snv FHL/EurMcwi (MCW), WKY/N (KNAW), WN/N (KNAW), LCR/1Mco (UMich), SHRSP/Gcrc (MDC)
12 45391310 45391311 T C snv LCR/2Mco (UMich), LCR/1Mco (UMich), HCR/2Mco (UMich)
12 45428102 45428103 T A snv SR/JrHsd (MCW), ACI/EurMcwi (MCW)
12 45428123 45428124 T C snv GH/OmrMcwi (MCW), BN/NHsdMcwi (KNAW), BN/SsN (KNAW), SS/JrHsdMcwi (MCW), SR/JrHsd (MCW), FHL/EurMcwi (MCW), FHH/EurMcwi (MCW), ACI/EurMcwi (MCW), LCR/1Mco (UMich), HCR/2Mco (UMich), LCR/2Mco (UMich)
12 45428204 45428205 G C snv LE/Stm (KNAW)
12 45428205 45428206 C A snv LE/Stm (KNAW)


Assembly: mRatBN7.2
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
12 45260646 45260647 G A snv ACI/EurMcwi (2019), WN/N (2020), BUF/N (2020), BXH2/CubMcwi (2020), DA/OlaHsd (2019), F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB2/IpcvMcwi (2019), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LEXF4/Stm (2020), LE/Stm (2019), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), M520/N (2020), MR/N (2020), MWF/Hsd (2019), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020), SS/JrHsdMcwi (2019), WAG/RijCrl (2020), WKY/NCrl (2019), WKY/N (2020), ACI/N (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620143 AgrOrtholog
BioCyc Gene G2FUF-18839 BioCyc
Ensembl Genes ENSRNOG00000000665 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000050368 ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOP00000058957.4 UniProtKB/TrEMBL
  ENSRNOP00000078649 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000091407.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000052202 ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOT00000066892.5 UniProtKB/TrEMBL
  ENSRNOT00000115109.1 UniProtKB/TrEMBL
  ENSRNOT00000115325 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.530.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6888321 IMAGE-MGC_LOAD
InterPro PI_transfer UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  START-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:114561 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72738 IMAGE-MGC_LOAD
NCBI Gene 114561 ENTREZGENE
PANTHER PTHR10658 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam IP_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pitpnb PhenoGen
PRINTS PITRANSFER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6ARL3_RAT UniProtKB/TrEMBL
  A0A8L2UMX1_RAT UniProtKB/TrEMBL
  D3ZCD4_RAT UniProtKB/TrEMBL
  P53812 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q6P7S3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-04   phosphatidylinositol transfer protein, beta  Pitpnb  phosphotidylinositol transfer protein, beta  Name updated 1299863 APPROVED
2004-02-26 Pitpnb  phosphotidylinositol transfer protein, beta      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Pitpnb  phosphotidylinositol transfer protein, beta      Symbol and Name status set to provisional 70820 PROVISIONAL