Zfp516 (zinc finger protein 516) - Rat Genome Database
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Gene: Zfp516 (zinc finger protein 516) Rattus norvegicus
Analyze
Symbol: Zfp516
Name: zinc finger protein 516
RGD ID: 1306817
Description: Predicted to have DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and activating transcription factor binding activity. Predicted to be involved in several processes, including adipose tissue development; brown fat cell differentiation; and positive regulation of cold-induced thermogenesis. Predicted to localize to nucleus. Orthologous to human ZNF516 (zinc finger protein 516); INTERACTS WITH atrazine; bisphenol A; tetrachloromethane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC291406; RGD1306817; similar to Hypothetical zinc finger protein KIAA0222; Znf516
Orthologs:
Homo sapiens (human) : ZNF516 (zinc finger protein 516)  HGNC  Alliance
Mus musculus (house mouse) : Zfp516 (zinc finger protein 516)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Znf516 (zinc finger protein 516)
Pan paniscus (bonobo/pygmy chimpanzee) : ZNF516 (zinc finger protein 516)
Canis lupus familiaris (dog) : ZNF516 (zinc finger protein 516)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Znf516 (zinc finger protein 516)
Sus scrofa (pig) : ZNF516 (zinc finger protein 516)
Chlorocebus sabaeus (African green monkey) : ZNF516 (zinc finger protein 516)
Heterocephalus glaber (naked mole-rat) : Znf516 (zinc finger protein 516)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01879,768,387 - 79,857,909 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1879,773,608 - 79,854,192 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01878,822,814 - 78,923,250 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41879,445,606 - 79,486,105 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11879,518,878 - 79,559,768 (+)NCBI
Celera1874,973,350 - 75,013,499 (+)NCBICelera
Cytogenetic Map18q12.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References


Genomics

Comparative Map Data
Zfp516
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01879,768,387 - 79,857,909 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1879,773,608 - 79,854,192 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01878,822,814 - 78,923,250 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41879,445,606 - 79,486,105 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11879,518,878 - 79,559,768 (+)NCBI
Celera1874,973,350 - 75,013,499 (+)NCBICelera
Cytogenetic Map18q12.3NCBI
ZNF516
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1876,357,682 - 76,495,242 (-)EnsemblGRCh38hg38GRCh38
GRCh381876,357,682 - 76,495,255 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371874,069,637 - 74,207,146 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361872,200,607 - 72,304,045 (-)NCBINCBI36hg18NCBI36
Celera1870,889,374 - 71,024,478 (-)NCBI
Cytogenetic Map18q23NCBI
HuRef1870,754,762 - 70,858,708 (-)NCBIHuRef
CHM1_11874,064,875 - 74,202,365 (-)NCBICHM1_1
Zfp516
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391882,925,324 - 83,023,439 (+)NCBI
GRCm381882,909,688 - 83,005,314 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1882,910,663 - 83,005,314 (+)EnsemblGRCm38mm10GRCm38
MGSCv371883,080,271 - 83,174,706 (+)NCBIGRCm37mm9NCBIm37
MGSCv361883,090,047 - 83,137,151 (+)NCBImm8
Celera1883,980,281 - 84,075,429 (+)NCBICelera
Cytogenetic Map18E3NCBI
Znf516
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540259,752,106 - 59,874,743 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540259,750,682 - 59,874,987 (-)NCBIChiLan1.0ChiLan1.0
ZNF516
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11873,021,762 - 73,150,904 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1873,026,076 - 73,103,609 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01869,748,472 - 69,891,026 (-)NCBIMhudiblu_PPA_v0panPan3
ZNF516
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl13,274,993 - 3,492,201 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.113,275,255 - 3,400,761 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Znf516
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366162,451,952 - 2,553,843 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZNF516
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1147,984,481 - 148,090,708 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11147,987,660 - 148,100,788 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21163,849,431 - 163,946,769 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ZNF516
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl183,504,027 - 3,583,816 (+)Ensembl
ChlSab1.1183,449,624 - 3,588,105 (+)NCBI
Znf516
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248064,103,811 - 4,223,294 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181569587287080053Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181569587287080053Rat
1600373Mamtr6Mammary tumor resistance QTL 6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)182028575887080053Rat
1331741Bp232Blood pressure QTL 2323.59112arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)182260373687074531Rat
1331733Bp233Blood pressure QTL 2333.97196arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)182596102681761656Rat
2303120Mamtr8Mammary tumor resistance QTL 80.001mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)183267035287080053Rat
631274Sprol1Serum protein level QTL 15.3blood total protein amount (VT:0005567)serum total protein level (CMO:0000661)183270402280696226Rat
631518Bw11Body weight QTL 112.8body mass (VT:0001259)body weight (CMO:0000012)183822191983221919Rat
61367Iddm4Insulin dependent diabetes mellitus QTL 42.330.0074blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)184037576985375769Rat
6893683Bw110Body weight QTL 1102.70.002body mass (VT:0001259)body weight (CMO:0000012)184500219488201929Rat
1598826Anxrr20Anxiety related response QTL 203.04body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)184631947688201929Rat
9589041Epfw12Epididymal fat weight QTL 1217.080.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)184913092088201929Rat
8694432Bw165Body weight QTL 1653.810.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)184913092088201929Rat
8694366Abfw8Abdominal fat weight QTL 86.380.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)184913092088201929Rat
2303571Bw92Body weight QTL 923body mass (VT:0001259)body weight (CMO:0000012)185137581688201929Rat
2303584Gluco55Glucose level QTL 552blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185137581688201929Rat
738008Hcar14Hepatocarcinoma resistance QTL 144.3liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion number (CMO:0001462)185303349487080053Rat
1558649Bw58Body weight QTL 583.40.0005body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
6893359Bw103Body weight QTL 1031.20.12body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
6893368Bw107Body weight QTL 1070.30.5body mass (VT:0001259)body weight (CMO:0000012)185744867888201929Rat
1298072Cia26Collagen induced arthritis QTL 263.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)185819630088201929Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)186190135479948616Rat
70185BpQTLcluster15Blood pressure QTL cluster 154.61arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186190135479948616Rat
2301969Bp324Blood pressure QTL 3244.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186190135479948616Rat
6903356Bp354Blood pressure QTL 3544.6arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)186198564888201929Rat
631675Iddm15Insulin dependent diabetes mellitus QTL 15urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)186280540680696375Rat
61384Bp48Blood pressure QTL 4819.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)186280540680696375Rat
724542Kidm2Kidney mass QTL 22.6kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)186300981288201929Rat
634333Pia19Pristane induced arthritis QTL 193.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)187715130183366399Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:117
Count of miRNA genes:97
Interacting mature miRNAs:102
Transcripts:ENSRNOT00000021768
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 20 6 4 2 4 31 20 39 8
Low 3 22 50 36 17 36 8 11 43 15 2 3 8
Below cutoff 1 1 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001191695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772099 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772100 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600866 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600867 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600869 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600870 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600871 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017600873 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07032751 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01096339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01096340 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01096341 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01096342 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000021768   ⟹   ENSRNOP00000021768
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1879,813,759 - 79,853,866 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000088484   ⟹   ENSRNOP00000072097
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1879,773,608 - 79,854,192 (+)Ensembl
RefSeq Acc Id: NM_001191695   ⟹   NP_001178624
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,813,759 - 79,853,866 (+)NCBI
Rnor_5.01878,822,814 - 78,923,250 (+)NCBI
Celera1874,973,350 - 75,013,499 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008772099   ⟹   XP_008770321
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,769,505 - 79,857,909 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008772100   ⟹   XP_008770322
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,773,314 - 79,857,908 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600866   ⟹   XP_017456355
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,773,314 - 79,857,908 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600867   ⟹   XP_017456356
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,773,741 - 79,857,909 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600868   ⟹   XP_017456357
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,770,005 - 79,857,909 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600869   ⟹   XP_017456358
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,784,094 - 79,857,909 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600870   ⟹   XP_017456359
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,772,673 - 79,857,908 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600871   ⟹   XP_017456360
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,773,741 - 79,857,909 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600872   ⟹   XP_017456361
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,768,387 - 79,857,908 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017600873   ⟹   XP_017456362
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01879,773,313 - 79,853,963 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001178624   ⟸   NM_001191695
- UniProtKB: D4A239 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008770321   ⟸   XM_008772099
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K242 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008770322   ⟸   XM_008772100
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017456361   ⟸   XM_017600872
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K242 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456357   ⟸   XM_017600868
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K242 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456359   ⟸   XM_017600870
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K242 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456362   ⟸   XM_017600873
- Peptide Label: isoform X2
- UniProtKB: D4A239 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456355   ⟸   XM_017600866
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K242 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456356   ⟸   XM_017600867
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K242 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456360   ⟸   XM_017600871
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K242 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017456358   ⟸   XM_017600869
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K242 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000021768   ⟸   ENSRNOT00000021768
RefSeq Acc Id: ENSRNOP00000072097   ⟸   ENSRNOT00000088484
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306817 AgrOrtholog
Ensembl Genes ENSRNOG00000016258 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000021768 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072097 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000021768 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000088484 ENTREZGENE, UniProtKB/TrEMBL
InterPro Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:291406 UniProtKB/TrEMBL
NCBI Gene 291406 ENTREZGENE
Pfam zf-C2H2 UniProtKB/TrEMBL
PhenoGen Zfp516 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniGene Rn.210038 ENTREZGENE
UniProt A0A0G2K242 ENTREZGENE, UniProtKB/TrEMBL
  D4A239 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-07-19 Zfp516  zinc finger protein 516  Znf516  zinc finger protein 516  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-25 Znf516  zinc finger protein 516  Zfp516  zinc finger protein 516  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Zfp516  zinc finger protein 516  RGD1306817_predicted  similar to Hypothetical zinc finger protein KIAA0222 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1306817_predicted  similar to Hypothetical zinc finger protein KIAA0222 (predicted)  LOC291406_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC291406_predicted  similar to Hypothetical zinc finger protein KIAA0222 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL