Zfp219 (zinc finger protein 219) - Rat Genome Database
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Gene: Zfp219 (zinc finger protein 219) Rattus norvegicus
Analyze
Symbol: Zfp219
Name: zinc finger protein 219
RGD ID: 1359259
Description: Predicted to have DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in limb bud formation; positive regulation of chondrocyte differentiation; and regulation of transcription by RNA polymerase II. Predicted to localize to nucleoplasm. Orthologous to human ZNF219 (zinc finger protein 219); INTERACTS WITH 1,2-dimethylhydrazine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: MGC94294; Znf219
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
mRatBN7.21524,695,831 - 24,710,039 (-)NCBI
Rnor_6.0 Ensembl1528,402,415 - 28,406,046 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01528,402,412 - 28,417,379 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01532,213,644 - 32,227,436 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41527,434,140 - 27,437,773 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11527,449,841 - 27,453,473 (-)NCBI
Celera1525,001,144 - 25,004,777 (-)NCBICelera
Cytogenetic Map15p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:10819330   PMID:14621294   PMID:19549071   PMID:20940257  


Genomics

Comparative Map Data
Zfp219
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21524,695,831 - 24,710,039 (-)NCBI
Rnor_6.0 Ensembl1528,402,415 - 28,406,046 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01528,402,412 - 28,417,379 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01532,213,644 - 32,227,436 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41527,434,140 - 27,437,773 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11527,449,841 - 27,453,473 (-)NCBI
Celera1525,001,144 - 25,004,777 (-)NCBICelera
Cytogenetic Map15p14NCBI
ZNF219
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1421,090,077 - 21,104,722 (-)EnsemblGRCh38hg38GRCh38
GRCh381421,090,076 - 21,104,722 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371421,558,236 - 21,572,881 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361420,628,045 - 20,642,703 (-)NCBINCBI36hg18NCBI36
Build 341420,628,075 - 20,636,639NCBI
Celera141,418,766 - 1,433,427 (-)NCBI
Cytogenetic Map14q11.2NCBI
HuRef141,678,861 - 1,693,061 (-)NCBIHuRef
CHM1_11421,559,994 - 21,574,599 (-)NCBICHM1_1
Zfp219
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391452,243,532 - 52,258,597 (-)NCBIGRCm39mm39
GRCm39 Ensembl1452,243,534 - 52,258,190 (-)Ensembl
GRCm381452,006,075 - 52,021,140 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1452,006,077 - 52,020,733 (-)EnsemblGRCm38mm10GRCm38
MGSCv371452,625,752 - 52,640,408 (-)NCBIGRCm37mm9NCBIm37
MGSCv361450,928,036 - 50,942,684 (-)NCBImm8
Celera1448,986,029 - 49,000,612 (-)NCBICelera
Cytogenetic Map14C2NCBI
Znf219
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555501,854,330 - 1,861,836 (-)NCBIChiLan1.0ChiLan1.0
ZNF219
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11419,986,653 - 20,001,301 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1419,986,653 - 20,000,300 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0141,904,632 - 1,919,304 (-)NCBIMhudiblu_PPA_v0panPan3
ZNF219
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1518,180,901 - 18,192,773 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11518,178,861 - 18,186,650 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Znf219
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936880293,874 - 308,160 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZNF219
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl778,035,226 - 78,043,467 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1778,028,560 - 78,043,491 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ZNF219
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12921,563,758 - 21,578,127 (-)NCBI
ChlSab1.1 Ensembl2921,564,213 - 21,567,247 (-)Ensembl
Znf219
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248257,084,757 - 7,098,942 (-)NCBI

Position Markers
D14Mit183  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01528,406,117 - 28,406,305NCBIRnor6.0
Rnor_5.01532,217,349 - 32,217,537UniSTSRnor5.0
RGSC_v3.41527,437,844 - 27,438,032UniSTSRGSC3.4
Celera1525,004,848 - 25,005,036UniSTS
Cytogenetic Map15p14UniSTS
RH138212  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01528,402,507 - 28,402,626NCBIRnor6.0
Rnor_5.01532,213,739 - 32,213,858UniSTSRnor5.0
RGSC_v3.41527,434,234 - 27,434,353UniSTSRGSC3.4
Celera1525,001,238 - 25,001,357UniSTS
RH 3.4 Map15199.37UniSTS
Cytogenetic Map15p14UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15130597196Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15137708474Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15137708474Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15137708474Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15142844179Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15143521446Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15162301382Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15232787753535766Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15388113148881131Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151071919155719191Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151549236072568189Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151582824233657761Rat
9590272Scort14Serum corticosterone level QTL 142.780.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)151698090761980907Rat
8694427Bw163Body weight QTL 1634.820.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)151698090761980907Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151724964162249641Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151809320881255430Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151851391388036354Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152102134241082727Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152102134252831189Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152377896946825072Rat
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

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:215
Count of miRNA genes:165
Interacting mature miRNAs:187
Transcripts:ENSRNOT00000015418
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 34 32 17 11 17 1 66 29 41 11
Low 9 25 24 8 24 8 10 8 6 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001007681 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251879 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006251880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017599667 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039093277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC129736 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC082017 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000015418   ⟹   ENSRNOP00000015418
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1528,402,415 - 28,406,046 (-)Ensembl
RefSeq Acc Id: NM_001007681   ⟹   NP_001007682
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,833 - 24,699,466 (-)NCBI
Rnor_6.01528,402,413 - 28,406,046 (-)NCBI
Rnor_5.01532,213,644 - 32,227,436 (-)NCBI
RGSC_v3.41527,434,140 - 27,437,773 (-)RGD
Celera1525,001,144 - 25,004,777 (-)RGD
Sequence:
RefSeq Acc Id: XM_006251878   ⟹   XP_006251940
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,703,472 (-)NCBI
Rnor_6.01528,402,413 - 28,407,965 (-)NCBI
Rnor_5.01532,213,644 - 32,227,436 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251879   ⟹   XP_006251941
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,709,734 (-)NCBI
Rnor_6.01528,402,413 - 28,416,768 (-)NCBI
Rnor_5.01532,213,644 - 32,227,436 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251880   ⟹   XP_006251942
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,710,039 (-)NCBI
Rnor_6.01528,402,413 - 28,417,379 (-)NCBI
Rnor_5.01532,213,644 - 32,227,436 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006251882   ⟹   XP_006251944
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01528,402,413 - 28,417,379 (-)NCBI
Rnor_5.01532,213,644 - 32,227,436 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008770522   ⟹   XP_008768744
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01528,402,413 - 28,412,168 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017599667   ⟹   XP_017455156
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,704,296 (-)NCBI
Rnor_6.01528,402,412 - 28,411,223 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039093273   ⟹   XP_038949201
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,710,039 (-)NCBI
RefSeq Acc Id: XM_039093274   ⟹   XP_038949202
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,704,185 (-)NCBI
RefSeq Acc Id: XM_039093275   ⟹   XP_038949203
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,703,655 (-)NCBI
RefSeq Acc Id: XM_039093276   ⟹   XP_038949204
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,703,665 (-)NCBI
RefSeq Acc Id: XM_039093277   ⟹   XP_038949205
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21524,695,831 - 24,704,185 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001007682   ⟸   NM_001007681
- UniProtKB: Q66H48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251944   ⟸   XM_006251882
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006251942   ⟸   XM_006251880
- Peptide Label: isoform X1
- UniProtKB: Q66H48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251941   ⟸   XM_006251879
- Peptide Label: isoform X1
- UniProtKB: Q66H48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006251940   ⟸   XM_006251878
- Peptide Label: isoform X1
- UniProtKB: Q66H48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768744   ⟸   XM_008770522
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017455156   ⟸   XM_017599667
- Peptide Label: isoform X1
- UniProtKB: Q66H48 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000015418   ⟸   ENSRNOT00000015418
RefSeq Acc Id: XP_038949201   ⟸   XM_039093273
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038949202   ⟸   XM_039093274
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038949205   ⟸   XM_039093277
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038949204   ⟸   XM_039093276
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038949203   ⟸   XM_039093275
- Peptide Label: isoform X1
Protein Domains
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)
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)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 32214244 32214245 G A snv IS-Tlk/Kyo (KyushuU), HTX/Kyo (KyushuU), ZF (KyushuU)
15 32216516 32216517 T A snv F344/Jcl (KyushuU)
15 32216531 32216532 C T snv F344/Jcl (KyushuU)
15 32216546 32216547 G A snv F344/DuCrlCrlj (KyushuU), F344/Jcl (KyushuU)
15 32216547 32216548 C G snv F344/DuCrlCrlj (KyushuU), F344/Jcl (KyushuU)
15 32216598 32216599 G A snv Crl:SD (UDEL), HWY/Slc (KyushuU), SDLEF7/Barth (UDEL)
15 32216604 32216605 C T snv SDLEF7/Barth (UDEL), HWY/Slc (KyushuU), Crl:SD (UDEL)
15 32216627 32216628 C T snv SDLEF7/Barth (UDEL), HWY/Slc (KyushuU), Crl:SD (UDEL)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 28404725 28404726 A C snv BN/SsN (MCW)
15 28405366 28405367 G A snv F344/NRrrc (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
15 27436452 27436453 A C snv BN/SsN (KNAW)
15 27437093 27437094 G A snv F344/NRrrc (KNAW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359259 AgrOrtholog
Ensembl Genes ENSRNOG00000011544 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015418 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015418 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7132141 IMAGE-MGC_LOAD
InterPro Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:305848 UniProtKB/TrEMBL
MGC_CLONE MGC:94294 IMAGE-MGC_LOAD
NCBI Gene 305848 ENTREZGENE
Pfam zf-C2H2 UniProtKB/TrEMBL
PhenoGen Zfp219 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt Q66H48 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-03-30 Zfp219  zinc finger protein 219  Znf219    Symbol updated 1299863 APPROVED
2005-07-29 Znf219  zinc finger protein 219      Symbol and Name status set to provisional 70820 PROVISIONAL