Patz1 (POZ (BTB) and AT hook containing zinc finger 1) - Rat Genome Database
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Gene: Patz1 (POZ (BTB) and AT hook containing zinc finger 1) Rattus norvegicus
Analyze
Symbol: Patz1
Name: POZ (BTB) and AT hook containing zinc finger 1
RGD ID: 1308337
Description: Predicted to have several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and ubiquitin protein ligase binding activity. Predicted to be involved in several processes, including T cell differentiation; male gonad development; and negative regulation of endothelial cell migration. Predicted to localize to nucleoplasm. Orthologous to human PATZ1 (POZ/BTB and AT hook containing zinc finger 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC305471; POZ-, AT hook-, and zinc finger-containing protein 1; Zfp278; zinc finger protein 278; Znf278
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
mRatBN7.21478,154,590 - 78,173,032 (+)NCBI
Rnor_6.0 Ensembl1483,510,278 - 83,528,898 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01483,509,763 - 83,528,898 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01484,198,755 - 84,217,034 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41483,905,714 - 83,936,768 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11483,915,647 - 83,934,526 (+)NCBI
Celera1477,068,978 - 77,087,236 (+)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

Additional References at PubMed
PMID:10669750   PMID:12477932   PMID:16491076   PMID:18241078   PMID:27125250   PMID:27983982  


Genomics

Comparative Map Data
Patz1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21478,154,590 - 78,173,032 (+)NCBI
Rnor_6.0 Ensembl1483,510,278 - 83,528,898 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01483,509,763 - 83,528,898 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01484,198,755 - 84,217,034 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41483,905,714 - 83,936,768 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11483,915,647 - 83,934,526 (+)NCBI
Celera1477,068,978 - 77,087,236 (+)NCBICelera
Cytogenetic Map14q21NCBI
PATZ1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2231,325,804 - 31,346,346 (-)EnsemblGRCh38hg38GRCh38
GRCh382231,325,804 - 31,346,346 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372231,721,790 - 31,742,332 (-)NCBIGRCh37GRCh37hg19GRCh37
GRCh372231,721,790 - 31,742,249 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362230,051,790 - 30,072,249 (-)NCBINCBI36hg18NCBI36
Build 342230,046,343 - 30,066,803NCBI
Celera2215,522,280 - 15,542,738 (-)NCBI
Cytogenetic Map22q12.2NCBI
HuRef2214,683,379 - 14,703,837 (-)NCBIHuRef
CHM1_12231,681,580 - 31,702,037 (-)NCBICHM1_1
Patz1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39113,239,131 - 3,259,083 (+)NCBIGRCm39mm39
GRCm38113,289,131 - 3,309,083 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl113,288,874 - 3,309,083 (+)EnsemblGRCm38mm10GRCm38
MGSCv37113,190,460 - 3,208,520 (+)NCBIGRCm37mm9NCBIm37
MGSCv36113,190,460 - 3,208,520 (+)NCBImm8
Celera113,781,391 - 3,799,451 (+)NCBICelera
Cytogenetic Map11A1NCBI
Patz1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554555,542,659 - 5,565,154 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554555,544,841 - 5,566,630 (-)NCBIChiLan1.0ChiLan1.0
PATZ1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12230,211,812 - 30,232,106 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2230,211,812 - 30,232,106 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02212,349,691 - 12,370,273 (-)NCBIMhudiblu_PPA_v0panPan3
PATZ1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2624,278,802 - 24,296,154 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12624,277,719 - 24,296,440 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Patz1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936755491,660 - 511,812 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PATZ1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1448,075,344 - 48,094,136 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11448,075,345 - 48,093,385 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21451,186,332 - 51,194,971 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PATZ1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11914,217,010 - 14,237,717 (-)NCBI
ChlSab1.1 Ensembl1914,215,918 - 14,237,579 (-)Ensembl
Patz1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247477,823,009 - 7,841,997 (-)NCBI

Position Markers
BE096205  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01483,533,309 - 83,533,463NCBIRnor6.0
Rnor_5.01484,221,445 - 84,221,599UniSTSRnor5.0
RGSC_v3.41483,928,663 - 83,928,817UniSTSRGSC3.4
Celera1477,091,647 - 77,091,801UniSTS
RH 3.4 Map14517.5UniSTS
Cytogenetic Map14q21UniSTS
RH143618  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01483,528,580 - 83,528,761NCBIRnor6.0
Rnor_5.01484,216,716 - 84,216,897UniSTSRnor5.0
RGSC_v3.41483,923,934 - 83,924,115UniSTSRGSC3.4
Celera1477,086,918 - 77,087,099UniSTS
RH 3.4 Map14526.8UniSTS
Cytogenetic Map14q21UniSTS
RH137686  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01483,508,783 - 83,509,030NCBIRnor6.0
Rnor_5.01484,196,920 - 84,197,167UniSTSRnor5.0
RGSC_v3.41483,904,137 - 83,904,384UniSTSRGSC3.4
Celera1477,067,202 - 77,067,449UniSTS
RH 3.4 Map14531.8UniSTS
Cytogenetic Map14q21UniSTS
RH141753  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01483,515,009 - 83,515,205NCBIRnor6.0
Rnor_5.01484,203,145 - 84,203,341UniSTSRnor5.0
RGSC_v3.41483,910,363 - 83,910,559UniSTSRGSC3.4
Celera1477,073,347 - 77,073,543UniSTS
RH 3.4 Map14530.4UniSTS
Cytogenetic Map14q21UniSTS
BF418015  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01483,525,299 - 83,525,469NCBIRnor6.0
Rnor_5.01484,213,435 - 84,213,605UniSTSRnor5.0
RGSC_v3.41483,920,653 - 83,920,823UniSTSRGSC3.4
Celera1477,083,637 - 77,083,807UniSTS
RH 3.4 Map14532.6UniSTS
Cytogenetic Map14q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1412680424106641756Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143259392686191589Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)144031561085315610Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)144031561085315610Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)144031561085315610Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)144031561085315610Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1442442731108833671Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1443910761105074364Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1451818462105074364Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1460980905105980905Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1460980905105980905Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)146187332388870994Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1461993178106993178Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1463548095108548095Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147339146788870994Rat
1582236Gluco22Glucose level QTL 223.30.0164blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582255Gluco29Glucose level QTL 293.10.0025blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)1478172765102549388Rat
1582197Gluco27Glucose level QTL 273.40.0006blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1478172765102549388Rat
1582209Gluco20Glucose level QTL 203.80.0005blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765102549388Rat
1582250Gluco26Glucose level QTL 263.30.0009blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1478172765106641756Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1478446303110402569Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1480049285115493446Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1480049285115493446Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:701
Count of miRNA genes:280
Interacting mature miRNAs:360
Transcripts:ENSRNOT00000025378
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 1 26 28 20 18 20 68 35 34 11
Low 2 17 29 21 1 21 8 11 6 7 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001107231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001277214 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001277215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_102353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_102354 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251292 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005492961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC094950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC098801 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK479676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DV728999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY318319 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV764152 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000254 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000025378   ⟹   ENSRNOP00000025378
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1483,510,640 - 83,528,898 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000081161   ⟹   ENSRNOP00000073870
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1483,510,278 - 83,519,405 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082242   ⟹   ENSRNOP00000072870
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1483,510,640 - 83,528,898 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089928   ⟹   ENSRNOP00000072370
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1483,510,640 - 83,515,371 (+)Ensembl
RefSeq Acc Id: NM_001107231   ⟹   NP_001100701
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,154,774 - 78,173,032 (+)NCBI
Rnor_6.01483,510,640 - 83,528,898 (+)NCBI
Rnor_5.01484,198,755 - 84,217,034 (+)NCBI
RGSC_v3.41483,905,714 - 83,936,768 (+)RGD
Celera1477,068,978 - 77,087,236 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001277214   ⟹   NP_001264143
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,154,774 - 78,173,032 (+)NCBI
Rnor_6.01483,510,640 - 83,528,898 (+)NCBI
Rnor_5.01484,198,755 - 84,217,034 (+)NCBI
Celera1477,068,978 - 77,087,236 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001277215   ⟹   NP_001264144
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,154,774 - 78,159,504 (+)NCBI
Rnor_6.01483,510,640 - 83,515,371 (+)NCBI
Rnor_5.01484,198,755 - 84,217,034 (+)NCBI
Celera1477,068,978 - 77,073,709 (+)NCBI
Sequence:
RefSeq Acc Id: NR_102353
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,157,085 - 78,173,032 (+)NCBI
Rnor_6.01483,512,951 - 83,528,898 (+)NCBI
Rnor_5.01484,198,755 - 84,217,034 (+)NCBI
Celera1477,071,289 - 77,087,236 (+)NCBI
Sequence:
RefSeq Acc Id: NR_102354
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,157,085 - 78,159,504 (+)NCBI
Rnor_6.01483,512,951 - 83,515,371 (+)NCBI
Rnor_5.01484,198,755 - 84,217,034 (+)NCBI
Celera1477,071,289 - 77,073,709 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006251292   ⟹   XP_006251354
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,154,590 - 78,173,032 (+)NCBI
Rnor_6.01483,509,763 - 83,528,898 (+)NCBI
Rnor_5.01484,198,755 - 84,217,034 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017599220   ⟹   XP_017454709
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01483,509,763 - 83,519,360 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092004   ⟹   XP_038947932
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,154,590 - 78,171,873 (+)NCBI
RefSeq Acc Id: XM_039092005   ⟹   XP_038947933
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,154,590 - 78,170,271 (+)NCBI
RefSeq Acc Id: XR_005492961
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21478,154,590 - 78,171,681 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100701   ⟸   NM_001107231
- Peptide Label: isoform 1
- UniProtKB: D3ZX15 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001264143   ⟸   NM_001277214
- Peptide Label: isoform 2
- UniProtKB: A0A0G2K420 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001264144   ⟸   NM_001277215
- Peptide Label: isoform 3
- UniProtKB: A0A0G2K2T7 (UniProtKB/TrEMBL),   Q4G032 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251354   ⟸   XM_006251292
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454709   ⟸   XM_017599220
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000072870   ⟸   ENSRNOT00000082242
RefSeq Acc Id: ENSRNOP00000072370   ⟸   ENSRNOT00000089928
RefSeq Acc Id: ENSRNOP00000073870   ⟸   ENSRNOT00000081161
RefSeq Acc Id: ENSRNOP00000025378   ⟸   ENSRNOT00000025378
RefSeq Acc Id: XP_038947932   ⟸   XM_039092004
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038947933   ⟸   XM_039092005
- Peptide Label: isoform X2
Protein Domains
BTB   C2H2-type

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)
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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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308337 AgrOrtholog
Ensembl Genes ENSRNOG00000018709 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000025378 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072370 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072870 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000073870 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025378 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000081161 UniProtKB/TrEMBL
  ENSRNOT00000082242 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000089928 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7376163 IMAGE-MGC_LOAD
InterPro BTB/POZ-like UniProtKB/TrEMBL
  BTB/POZ_fold UniProtKB/TrEMBL
  HMGI/Y_DNA-bd_CS UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:305471 UniProtKB/TrEMBL
MGC_CLONE MGC:112843 IMAGE-MGC_LOAD
NCBI Gene 305471 ENTREZGENE
Pfam BTB UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/TrEMBL
PhenoGen Patz1 PhenoGen
PROSITE BTB UniProtKB/TrEMBL
  HMGI_Y UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART BTB UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP BTB/POZ_fold UniProtKB/TrEMBL
  SSF57667 UniProtKB/TrEMBL
UniProt A0A0G2K2T7 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K420 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2K6M4_RAT UniProtKB/TrEMBL
  D3ZX15 ENTREZGENE, UniProtKB/TrEMBL
  Q4G032 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-27 Patz1  POZ (BTB) and AT hook containing zinc finger 1  Zfp278  zinc finger protein 278  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Zfp278  zinc finger protein 278  Znf278_predicted  zinc finger protein 278 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Znf278_predicted  zinc finger protein 278 (predicted)      Symbol and Name status set to approved 70820 APPROVED