Pibf1 (progesterone immunomodulatory binding factor 1) - Rat Genome Database

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Gene: Pibf1 (progesterone immunomodulatory binding factor 1) Rattus norvegicus
Analyze
Symbol: Pibf1
Name: progesterone immunomodulatory binding factor 1
RGD ID: 1305077
Description: Predicted to have identical protein binding activity and interleukin-4 receptor binding activity. Predicted to be involved in several processes, including mitotic nuclear division; regulation of cytokine production; and regulation of protein phosphorylation. Predicted to localize to centriolar satellite; extracellular space; and nucleus. Human ortholog(s) of this gene implicated in Joubert syndrome 33. Orthologous to human PIBF1 (progesterone immunomodulatory binding factor 1); INTERACTS WITH bisphenol A; diuron; indole-3-methanol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC306104; progesterone-induced-blocking factor 1; RGD1305077; similar to Progesterone-induced blocking factor 1
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
mRatBN7.21575,850,389 - 76,019,711 (+)NCBI
Rnor_6.0 Ensembl1583,495,377 - 83,663,143 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01583,494,110 - 83,663,202 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01587,005,462 - 87,172,130 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41582,881,953 - 83,056,944 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11582,898,831 - 83,072,408 (+)NCBI
Celera1575,091,001 - 75,260,927 (+)NCBICelera
Cytogenetic Map15q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:3863495   PMID:12516630   PMID:14634107   PMID:16393965   PMID:21224392   PMID:21399614   PMID:23110211   PMID:26167768   PMID:27107012  


Genomics

Comparative Map Data
Pibf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21575,850,389 - 76,019,711 (+)NCBI
Rnor_6.0 Ensembl1583,495,377 - 83,663,143 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01583,494,110 - 83,663,202 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01587,005,462 - 87,172,130 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41582,881,953 - 83,056,944 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11582,898,831 - 83,072,408 (+)NCBI
Celera1575,091,001 - 75,260,927 (+)NCBICelera
Cytogenetic Map15q21NCBI
PIBF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1372,782,133 - 73,016,461 (+)EnsemblGRCh38hg38GRCh38
GRCh381372,782,133 - 73,016,461 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371373,356,271 - 73,590,599 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361372,254,231 - 72,488,593 (+)NCBINCBI36hg18NCBI36
Build 341372,254,230 - 72,488,593NCBI
Celera1354,254,692 - 54,489,071 (+)NCBI
Cytogenetic Map13q21.33-q22.1NCBI
HuRef1354,053,569 - 54,287,899 (+)NCBIHuRef
CHM1_11373,323,943 - 73,558,232 (+)NCBICHM1_1
Pibf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391499,336,860 - 99,492,335 (+)NCBIGRCm39mm39
GRCm39 Ensembl1499,336,860 - 99,491,929 (+)Ensembl
GRCm381499,099,424 - 99,254,899 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1499,099,424 - 99,254,493 (+)EnsemblGRCm38mm10GRCm38
MGSCv371499,498,652 - 99,653,712 (+)NCBIGRCm37mm9NCBIm37
MGSCv361497,982,567 - 98,137,627 (+)NCBImm8
Celera1497,775,191 - 97,930,507 (+)NCBICelera
Cytogenetic Map14E2.2NCBI
cM Map1449.27NCBI
Pibf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540433,714,193 - 33,897,622 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540433,713,903 - 33,897,622 (-)NCBIChiLan1.0ChiLan1.0
PIBF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11372,787,220 - 73,022,473 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1372,788,608 - 73,022,473 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01354,011,239 - 54,247,952 (+)NCBIMhudiblu_PPA_v0panPan3
PIBF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12226,935,390 - 27,133,308 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2226,936,567 - 27,133,308 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2226,791,190 - 26,988,956 (+)NCBI
ROS_Cfam_1.02227,266,788 - 27,464,812 (+)NCBI
UMICH_Zoey_3.12226,928,764 - 27,126,561 (+)NCBI
UNSW_CanFamBas_1.02226,968,252 - 27,166,039 (+)NCBI
UU_Cfam_GSD_1.02227,039,625 - 27,237,472 (+)NCBI
Pibf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945132,443,686 - 132,665,523 (-)NCBI
SpeTri2.0NW_0049365117,860,552 - 8,082,850 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PIBF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1145,076,061 - 45,362,891 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11145,076,046 - 45,362,708 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21149,486,085 - 49,506,698 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PIBF1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1351,916,787 - 52,153,018 (+)NCBI
Pibf1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475127,543,768 - 27,760,536 (-)NCBI

Position Markers
D15Rat23  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01583,647,062 - 83,647,199NCBIRnor6.0
Rnor_5.01587,155,990 - 87,156,127UniSTSRnor5.0
RGSC_v3.41583,040,937 - 83,041,075RGDRGSC3.4
RGSC_v3.41583,040,938 - 83,041,075UniSTSRGSC3.4
RGSC_v3.11583,056,718 - 83,056,855RGD
Celera1575,244,181 - 75,244,318UniSTS
RH 3.4 Map15521.2RGD
RH 3.4 Map15521.2UniSTS
SHRSP x BN Map1546.4098UniSTS
SHRSP x BN Map1546.4098RGD
Cytogenetic Map15q21UniSTS
BI293372  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01583,555,512 - 83,555,731NCBIRnor6.0
Rnor_5.01587,066,798 - 87,067,017UniSTSRnor5.0
RGSC_v3.41582,943,185 - 82,943,404UniSTSRGSC3.4
Celera1575,152,252 - 75,152,471UniSTS
RH 3.4 Map15517.4UniSTS
Cytogenetic Map15q21UniSTS
BE121430  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01583,630,421 - 83,630,578NCBIRnor6.0
Rnor_5.01587,139,349 - 87,139,506UniSTSRnor5.0
RGSC_v3.41583,024,775 - 83,024,932UniSTSRGSC3.4
Celera1575,228,085 - 75,228,242UniSTS
RH 3.4 Map15518.4UniSTS
Cytogenetic Map15q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151851391388036354Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1526381041106550657Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1526381041106550657Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1526381041106550657Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)153321910189640841Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)153321910189640841Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)153321910189640841Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)153321910189640841Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)153321910189640841Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154106809486068094Rat
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1543097470106550657Rat
1576315Schws6Schwannoma susceptibility QTL 60.0069nervous system integrity trait (VT:0010566)post-insult time of death (CMO:0002005)1561447766106447766Rat
61477Aia4Adjuvant induced arthritis QTL 43joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)156259641099372139Rat
631516Gluco31Glucose level QTL 317blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1562596410103164962Rat
631655Bp126Blood pressure QTL 1264arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1565520564110520564Rat
731177Uae26Urinary albumin excretion QTL 262.40.025urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1575527634111246239Rat
2300326Plaw1Placental weight QTL 1150.005placenta mass (VT:0004257)placenta wet weight (CMO:0002088)1575761024109400896Rat
1331724Bp223Blood pressure QTL 2233.53715arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1581255292103165069Rat
1641889Colcr6Colorectal carcinoma resistance QTL 62.90.0126intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)1581255292109133904Rat
70182BpQTLcluster12Blood pressure QTL cluster 123.53arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)1581255430103164962Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:58
Count of miRNA genes:55
Interacting mature miRNAs:57
Transcripts:ENSRNOT00000012239, ENSRNOT00000036350
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


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 8 22 6 17 6 1 1 63 27 37 11 1
Low 3 35 35 35 2 35 7 9 11 8 4 7
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000036350   ⟹   ENSRNOP00000037643
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1583,495,377 - 83,663,143 (+)Ensembl
RefSeq Acc Id: NM_001305419   ⟹   NP_001292348
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,624 - 76,019,711 (+)NCBI
Rnor_6.01583,494,281 - 83,663,202 (+)NCBI
Celera1575,091,001 - 75,260,927 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252405   ⟹   XP_006252467
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,616 - 76,019,711 (+)NCBI
Rnor_6.01583,494,268 - 83,663,202 (+)NCBI
Rnor_5.01587,005,462 - 87,172,130 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252406   ⟹   XP_006252468
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,389 - 76,019,711 (+)NCBI
Rnor_6.01583,494,110 - 83,663,202 (+)NCBI
Rnor_5.01587,005,462 - 87,172,130 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006252407   ⟹   XP_006252469
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,651 - 76,009,259 (+)NCBI
Rnor_6.01583,494,268 - 83,652,696 (+)NCBI
Rnor_5.01587,005,462 - 87,172,130 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039093379   ⟹   XP_038949307
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,651 - 76,019,711 (+)NCBI
RefSeq Acc Id: XM_039093380   ⟹   XP_038949308
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,651 - 75,956,453 (+)NCBI
RefSeq Acc Id: XM_039093381   ⟹   XP_038949309
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,619 - 75,911,241 (+)NCBI
RefSeq Acc Id: XM_039093382   ⟹   XP_038949310
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,651 - 75,911,241 (+)NCBI
RefSeq Acc Id: XM_224451   ⟹   XP_224451
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21575,850,609 - 76,019,711 (+)NCBI
Rnor_6.01583,494,229 - 83,663,202 (+)NCBI
Rnor_5.01587,005,462 - 87,172,130 (+)NCBI
RGSC_v3.41582,881,953 - 83,056,944 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: XP_224451   ⟸   XM_224451
- Peptide Label: isoform X1
- UniProtKB: D3ZU21 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252468   ⟸   XM_006252406
- Peptide Label: isoform X1
- UniProtKB: D3ZU21 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006252469   ⟸   XM_006252407
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006252467   ⟸   XM_006252405
- Peptide Label: isoform X1
- UniProtKB: D3ZU21 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001292348   ⟸   NM_001305419
- UniProtKB: D3ZU21 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000037643   ⟸   ENSRNOT00000036350
RefSeq Acc Id: XP_038949309   ⟸   XM_039093381
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038949307   ⟸   XM_039093379
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038949308   ⟸   XM_039093380
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038949310   ⟸   XM_039093382
- Peptide Label: isoform X6

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)
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)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305077 AgrOrtholog
Ensembl Genes ENSRNOG00000009208 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000037643 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036350 UniProtKB/TrEMBL
InterPro PIBF1 UniProtKB/TrEMBL
KEGG Report rno:306104 UniProtKB/TrEMBL
NCBI Gene 306104 ENTREZGENE
PANTHER PTHR18950 UniProtKB/TrEMBL
PhenoGen Pibf1 PhenoGen
UniProt D3ZU21 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Pibf1  progesterone immunomodulatory binding factor 1  RGD1305077_predicted  similar to Progesterone-induced blocking factor 1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1305077_predicted  similar to Progesterone-induced blocking factor 1 (predicted)  LOC306104_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC306104_predicted  similar to Progesterone-induced blocking factor 1 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL