Paxip1 (PAX interacting protein 1) - Rat Genome Database

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Gene: Paxip1 (PAX interacting protein 1) Rattus norvegicus
Analyze
Symbol: Paxip1
Name: PAX interacting protein 1
RGD ID: 1307547
Description: Predicted to be involved in several processes, including histone H3-K4 methylation; negative regulation of DNA-binding transcription factor activity; and positive regulation of nitrogen compound metabolic process. Predicted to act upstream of or within cellular response to DNA damage stimulus. Predicted to be located in nucleus. Predicted to be part of MLL3/4 complex. Orthologous to human PAXIP1 (PAX interacting protein 1); PARTICIPATES IN histone modification pathway; INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; bisphenol A; flutamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC311944; PAX interacting (with transcription-activation domain) protein 1; PAX-interacting protein 1
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
mRatBN7.247,524,887 - 7,576,663 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl47,525,004 - 7,576,548 (+)Ensembl
Rnor_6.043,956,931 - 4,008,326 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl43,959,640 - 4,008,326 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.043,996,608 - 4,047,988 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.442,790,532 - 2,839,246 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.142,717,068 - 2,839,242 (+)NCBI
Celera42,704,414 - 2,753,568 (-)NCBICelera
Cytogenetic Map4q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
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 MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation
6. The COMPASS family of histone H3K4 methylases: mechanisms of regulation in development and disease pathogenesis. Shilatifard A Annu Rev Biochem. 2012;81:65-95. doi: 10.1146/annurev-biochem-051710-134100.
Additional References at PubMed
PMID:10908331   PMID:11940591   PMID:15456759   PMID:17178841   PMID:17500065   PMID:17690115   PMID:17925232   PMID:18353733   PMID:18710940   PMID:19124460   PMID:19583951   PMID:20671152  
PMID:26744420  


Genomics

Comparative Map Data
Paxip1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.247,524,887 - 7,576,663 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl47,525,004 - 7,576,548 (+)Ensembl
Rnor_6.043,956,931 - 4,008,326 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl43,959,640 - 4,008,326 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.043,996,608 - 4,047,988 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.442,790,532 - 2,839,246 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.142,717,068 - 2,839,242 (+)NCBI
Celera42,704,414 - 2,753,568 (-)NCBICelera
Cytogenetic Map4q11NCBI
PAXIP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387154,943,690 - 155,003,411 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl7154,943,687 - 155,003,124 (-)EnsemblGRCh38hg38GRCh38
GRCh377154,735,400 - 154,794,834 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367154,366,333 - 154,425,615 (-)NCBINCBI36hg18NCBI36
Build 347154,173,048 - 154,232,306NCBI
Celera7149,152,557 - 149,211,836 (-)NCBI
Cytogenetic Map7q36.2NCBI
HuRef7148,468,426 - 148,527,705 (-)NCBIHuRef
CHM1_17154,743,784 - 154,803,135 (-)NCBICHM1_1
T2T-CHM13v2.07156,118,967 - 156,178,398 (-)NCBI
CRA_TCAGchr7v27153,963,422 - 154,022,702 (-)NCBI
Paxip1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39527,945,078 - 27,999,326 (-)NCBIGRCm39mm39
GRCm39 Ensembl527,945,078 - 27,996,689 (-)Ensembl
GRCm38527,740,080 - 27,791,672 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl527,740,080 - 27,791,691 (-)EnsemblGRCm38mm10GRCm38
MGSCv37528,067,205 - 28,117,879 (-)NCBIGRCm37mm9NCBIm37
MGSCv36528,071,452 - 28,122,126 (-)NCBImm8
Celera525,287,864 - 25,339,859 (-)NCBICelera
Cytogenetic Map5B1NCBI
cM Map513.23NCBI
Paxip1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554918,177,422 - 8,219,766 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554918,177,422 - 8,219,764 (-)NCBIChiLan1.0ChiLan1.0
PAXIP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17158,274,193 - 158,329,139 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7158,276,798 - 158,330,911 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v07146,546,658 - 146,605,912 (-)NCBIMhudiblu_PPA_v0panPan3
PAXIP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11618,066,289 - 18,116,007 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1618,066,246 - 18,112,506 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1618,699,205 - 18,749,159 (-)NCBI
ROS_Cfam_1.01619,794,777 - 19,844,723 (-)NCBI
ROS_Cfam_1.0 Ensembl1619,794,777 - 19,844,705 (-)Ensembl
UMICH_Zoey_3.11618,166,085 - 18,216,026 (-)NCBI
UNSW_CanFamBas_1.01618,746,356 - 18,796,284 (-)NCBI
UU_Cfam_GSD_1.01618,799,076 - 18,849,057 (-)NCBI
Paxip1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244051183,415,214 - 3,463,432 (+)NCBI
SpeTri2.0NW_0049365279,440,129 - 9,488,215 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAXIP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl183,066,847 - 3,111,239 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1183,066,853 - 3,111,239 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2183,227,951 - 3,250,496 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PAXIP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121123,095,968 - 123,156,157 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl21123,095,966 - 123,155,800 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607219,215,604 - 19,275,681 (-)NCBIVero_WHO_p1.0
Paxip1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248002,653,732 - 2,707,161 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248002,653,381 - 2,709,261 (+)NCBIHetGla_female_1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61351Bp33Blood pressure QTL 330.0018arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4127716890Rat
61408Scl23Serum cholesterol level QTL 230.0005blood HDL phospholipid amount (VT:0010504)serum high density lipoprotein phospholipid level (CMO:0001567)4127716890Rat
724557Plsm1Polydactyly-luxate syndrome (PLS) morphotypes QTL 10.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)4127716890Rat
1641905Colcr1Colorectal carcinoma resistance QTL 14.30.0003intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)4129494328Rat
61333Gluco16Glucose level QTL 164.30.00001adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)4130372989Rat
9589097Slep11Serum leptin concentration QTL 115.090.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)4131934116Rat
8552903Pigfal2Plasma insulin-like growth factor 1 level QTL 27.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)4131934116Rat
9589046Scfw2Subcutaneous fat weight QTL 25.540.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)4131934116Rat
9590100Sffal4Serum free fatty acids level QTL 47.360.05blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)4131934116Rat
738021Hcar13Hepatocarcinoma resistance QTL 134.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)4132584199Rat
1357341Gluco5Glucose level QTL 56.4adipocyte free fatty acid secretion trait (VT:0010465)absolute change in adipocyte free fatty acid secretion per unit volume (CMO:0001446)4133250345Rat
1357343Gluco4Glucose level QTL 40.00002adipocyte glucose uptake trait (VT:0004185)adipocyte maximal glucose uptake to basal glucose uptake ratio (CMO:0000874)4133250345Rat
61415Eae11Experimental allergic encephalomyelitis QTL 112.9nervous system integrity trait (VT:0010566)post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)4139505420Rat
634323Hc2Hypercalciuria QTL 22.15urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)421079645210796Rat
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2302371Stl22Serum triglyceride level QTL 225.15blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829457114705Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829465958103Rat
1358201Gluco12Glucose level QTL121.6adipocyte glucose uptake trait (VT:0004185)adipocyte maximal glucose uptake (CMO:0000870)4521839229593287Rat
631642Stl2Serum triglyceride level QTL 23.3blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521917856647776Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:40
Count of miRNA genes:39
Interacting mature miRNAs:40
Transcripts:ENSRNOT00000009439
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 3 26 32 22 19 22 74 23 41 11
Low 17 25 19 19 8 11 12 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009439   ⟹   ENSRNOP00000009439
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl47,525,004 - 7,575,997 (+)Ensembl
Rnor_6.0 Ensembl43,959,640 - 4,008,326 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000099077   ⟹   ENSRNOP00000081191
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl47,530,970 - 7,575,997 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000104160   ⟹   ENSRNOP00000097277
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl47,525,128 - 7,576,548 (+)Ensembl
RefSeq Acc Id: NM_001107844   ⟹   NP_001101314
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.247,527,808 - 7,576,663 (+)NCBI
Rnor_6.043,959,640 - 4,008,326 (+)NCBI
Rnor_5.043,996,608 - 4,047,988 (+)NCBI
RGSC_v3.442,790,532 - 2,839,246 (+)RGD
Celera42,704,414 - 2,753,568 (-)RGD
Sequence:
RefSeq Acc Id: XM_017592607   ⟹   XP_017448096
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.247,524,887 - 7,576,659 (+)NCBI
Rnor_6.043,956,931 - 4,008,322 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017592608   ⟹   XP_017448097
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.247,525,419 - 7,576,659 (+)NCBI
Rnor_6.043,957,207 - 4,008,322 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017592609   ⟹   XP_017448098
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.247,542,453 - 7,576,659 (+)NCBI
Rnor_6.043,974,292 - 4,008,322 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101314 (Get FASTA)   NCBI Sequence Viewer  
  XP_017448096 (Get FASTA)   NCBI Sequence Viewer  
  XP_017448097 (Get FASTA)   NCBI Sequence Viewer  
  XP_017448098 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL86409 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101314   ⟸   NM_001107844
- Sequence:
RefSeq Acc Id: XP_017448096   ⟸   XM_017592607
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017448097   ⟸   XM_017592608
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017448098   ⟸   XM_017592609
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000009439   ⟸   ENSRNOT00000009439
RefSeq Acc Id: ENSRNOP00000081191   ⟸   ENSRNOT00000099077
RefSeq Acc Id: ENSRNOP00000097277   ⟸   ENSRNOT00000104160

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSX6-F1-model_v2 AlphaFold D3ZSX6 1-824 view protein structure

Transcriptome

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


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)
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
BXH3/CubMcwi (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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
F344/NCrl (2019)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
LE/Stm (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
LEW/Crl (2019)
Visual CSV TAB Printer
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)
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
LEXF11/Stm (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
4 2827327 2827328 T G snv SS/JrHsdMcwi (MDC), FHH/EurMcwi (MDC)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307547 AgrOrtholog
BioCyc Gene G2FUF-46125 BioCyc
Ensembl Genes ENSRNOG00000007131 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009439 ENTREZGENE
  ENSRNOP00000009439.6 UniProtKB/TrEMBL
  ENSRNOP00000081191.1 UniProtKB/TrEMBL
  ENSRNOP00000097277.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009439 ENTREZGENE
  ENSRNOT00000009439.6 UniProtKB/TrEMBL
  ENSRNOT00000099077.1 UniProtKB/TrEMBL
  ENSRNOT00000104160.1 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.10190 UniProtKB/TrEMBL
InterPro BRCT UniProtKB/TrEMBL
  BRCT_dom_sf UniProtKB/TrEMBL
  Paxip1 UniProtKB/TrEMBL
NCBI Gene 311944 ENTREZGENE
PANTHER PTHR23196:SF31 UniProtKB/TrEMBL
Pfam BRCT UniProtKB/TrEMBL
  PTCB-BRCT UniProtKB/TrEMBL
  RTT107_BRCT_5 UniProtKB/TrEMBL
PhenoGen Paxip1 PhenoGen
PROSITE BRCT UniProtKB/TrEMBL
SMART BRCT UniProtKB/TrEMBL
Superfamily-SCOP BRCT UniProtKB/TrEMBL
UniProt A0A8I5ZSF2_RAT UniProtKB/TrEMBL
  A0A8I6GMG2_RAT UniProtKB/TrEMBL
  D3ZSX6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-22 Paxip1  PAX interacting protein 1  Paxip1  PAX interacting (with transcription-activation domain) protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Paxip1  PAX interacting (with transcription-activation domain) protein 1   Paxip1_predicted  PAX interacting (with transcription-activation domain) protein 1 (predicted)  'predicted' is removed 2292626 APPROVED
2008-01-09 Paxip1_predicted  PAX interacting (with transcription-activation domain) protein 1 (predicted)  LOC681792  similar to Pax transcription activation domain interacting protein  Data Merged 1643240 APPROVED
2006-11-20 LOC681792  similar to Pax transcription activation domain interacting protein      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Paxip1_predicted  PAX interacting (with transcription-activation domain) protein 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED