Zbtb18 (zinc finger and BTB domain containing 18) - Rat Genome Database

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Gene: Zbtb18 (zinc finger and BTB domain containing 18) Rattus norvegicus
Analyze
Symbol: Zbtb18
Name: zinc finger and BTB domain containing 18
RGD ID: 621548
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 several processes, including nervous system development; regulation of transcription by RNA polymerase II; and skeletal muscle tissue development. Predicted to localize to heterochromatin and nuclear speck. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability 22. Orthologous to human ZBTB18 (zinc finger and BTB domain containing 18); INTERACTS WITH ammonium chloride; amphetamine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 58 kDa repressor protein; Rp58; rRP58; transcriptional repressor RP58; Zfp238; zinc finger and BTB domain-containing protein 18; zinc finger protein 238; Znf238
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
mRatBN7.21389,439,633 - 89,447,958 (+)NCBI
Rnor_6.0 Ensembl1395,589,668 - 95,591,236 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01395,582,234 - 95,593,316 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.013100,031,993 - 100,039,682 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41393,345,905 - 93,347,473 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11393,534,788 - 93,536,357 (+)NCBI
Celera1389,005,808 - 89,007,376 (+)NCBICelera
Cytogenetic Map13q25NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:9756912   PMID:12040400   PMID:18262495   PMID:19409883   PMID:20059953   PMID:25796446  


Genomics

Comparative Map Data
Zbtb18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21389,439,633 - 89,447,958 (+)NCBI
Rnor_6.0 Ensembl1395,589,668 - 95,591,236 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01395,582,234 - 95,593,316 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.013100,031,993 - 100,039,682 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41393,345,905 - 93,347,473 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11393,534,788 - 93,536,357 (+)NCBI
Celera1389,005,808 - 89,007,376 (+)NCBICelera
Cytogenetic Map13q25NCBI
ZBTB18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1244,048,939 - 244,057,476 (+)EnsemblGRCh38hg38GRCh38
GRCh381244,048,653 - 244,057,476 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371244,211,955 - 244,220,778 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361242,281,184 - 242,287,401 (+)NCBINCBI36hg18NCBI36
Build 341240,540,625 - 240,546,817NCBI
Celera1217,504,910 - 217,511,127 (+)NCBI
Cytogenetic Map1q44NCBI
HuRef1214,598,471 - 214,604,688 (+)NCBIHuRef
CHM1_11245,484,555 - 245,493,088 (+)NCBICHM1_1
Zbtb18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391177,269,858 - 177,278,330 (+)NCBIGRCm39mm39
GRCm39 Ensembl1177,269,917 - 177,278,330 (+)Ensembl
GRCm381177,442,351 - 177,450,764 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1177,442,351 - 177,450,764 (+)EnsemblGRCm38mm10GRCm38
MGSCv371179,374,792 - 179,380,895 (+)NCBIGRCm37mm9NCBIm37
MGSCv361179,281,336 - 179,287,439 (+)NCBImm8
Celera1184,508,151 - 184,514,258 (+)NCBICelera
Cytogenetic Map1H4NCBI
Zbtb18
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554067,364,080 - 7,373,483 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554067,364,080 - 7,372,038 (+)NCBIChiLan1.0ChiLan1.0
ZBTB18
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11225,042,282 - 225,050,259 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1225,042,281 - 225,050,259 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01219,660,496 - 219,669,134 (+)NCBIMhudiblu_PPA_v0panPan3
ZBTB18
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1735,123,417 - 35,130,349 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl735,117,209 - 35,129,134 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha734,597,536 - 34,605,025 (+)NCBI
ROS_Cfam_1.0734,950,266 - 34,957,787 (+)NCBI
UMICH_Zoey_3.1734,787,410 - 34,794,904 (+)NCBI
UNSW_CanFamBas_1.0734,803,630 - 34,811,140 (+)NCBI
UU_Cfam_GSD_1.0735,068,175 - 35,075,704 (+)NCBI
Zbtb18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934448,033,306 - 48,041,262 (+)NCBI
SpeTri2.0NW_0049365266,706,035 - 6,714,011 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZBTB18
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1016,915,501 - 16,923,527 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11016,913,022 - 16,921,722 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21019,351,349 - 19,359,708 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ZBTB18
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12581,077,011 - 81,085,049 (+)NCBI
Vero_WHO_p1.0NW_02366605583,261,294 - 83,270,100 (+)NCBI
Zbtb18
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477115,425,610 - 15,432,012 (-)NCBI

Position Markers
Zfp238  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21389,443,319 - 89,444,237 (+)MAPPER
Rnor_6.01395,588,676 - 95,589,592NCBIRnor6.0
Rnor_5.013100,035,042 - 100,035,958UniSTSRnor5.0
RGSC_v3.41393,344,913 - 93,345,829UniSTSRGSC3.4
Celera1389,004,816 - 89,005,732UniSTS
Cytogenetic Map13q25UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131107975663Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131107975663Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1312193394108478121Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1324502279108770533Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1335301263107975663Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133614753399968921Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133614753399968921Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)135108098996080989Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135156924896569248Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1357903612102903612Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1362975663107975663Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1366971778111971778Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1371230858114033958Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1371230858114033958Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1372583716114033958Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)777694986114033958Rat
8655959Pur32Proteinuria QTL 328.4total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1379567081103613733Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1380403559108770687Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1386833393114033958Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:108
Count of miRNA genes:86
Interacting mature miRNAs:98
Transcripts:ENSRNOT00000005849
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 42 47 31 19 31 8 11 74 35 41 11 8
Low 1 10 10 10
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_022678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250330 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006250331 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769797 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769798 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769799 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008769800 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017598926 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091072 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091074 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091076 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039091078 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF221838 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473985 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000245 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000005849   ⟹   ENSRNOP00000005849
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1395,589,668 - 95,591,236 (+)Ensembl
RefSeq Acc Id: NM_022678   ⟹   NP_073169
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,444,313 - 89,445,881 (+)NCBI
Rnor_6.01395,589,668 - 95,591,236 (+)NCBI
Rnor_5.013100,031,993 - 100,039,682 (+)NCBI
RGSC_v3.41393,345,905 - 93,347,473 (+)RGD
Celera1389,005,808 - 89,007,376 (+)RGD
Sequence:
RefSeq Acc Id: XM_006250328   ⟹   XP_006250390
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,440,517 - 89,447,958 (+)NCBI
Rnor_6.01395,585,624 - 95,593,316 (+)NCBI
Rnor_5.013100,031,993 - 100,039,682 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006250330   ⟹   XP_006250392
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01395,585,624 - 95,593,316 (+)NCBI
Rnor_5.013100,031,993 - 100,039,682 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006250331   ⟹   XP_006250393
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,443,287 - 89,447,958 (+)NCBI
Rnor_6.01395,588,627 - 95,593,316 (+)NCBI
Rnor_5.013100,031,993 - 100,039,682 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769797   ⟹   XP_008768019
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01395,582,246 - 95,593,316 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769798   ⟹   XP_008768020
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01395,585,624 - 95,593,316 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769799   ⟹   XP_008768021
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01395,587,356 - 95,593,316 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008769800   ⟹   XP_008768022
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,439,639 - 89,447,958 (+)NCBI
Rnor_6.01395,582,234 - 95,593,316 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017598926   ⟹   XP_017454415
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01395,585,624 - 95,593,316 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039091072   ⟹   XP_038947000
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,439,633 - 89,447,958 (+)NCBI
RefSeq Acc Id: XM_039091073   ⟹   XP_038947001
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,440,370 - 89,447,958 (+)NCBI
RefSeq Acc Id: XM_039091074   ⟹   XP_038947002
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,439,817 - 89,447,958 (+)NCBI
RefSeq Acc Id: XM_039091075   ⟹   XP_038947003
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,439,643 - 89,447,958 (+)NCBI
RefSeq Acc Id: XM_039091076   ⟹   XP_038947004
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,439,633 - 89,447,958 (+)NCBI
RefSeq Acc Id: XM_039091077   ⟹   XP_038947005
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,440,370 - 89,447,958 (+)NCBI
RefSeq Acc Id: XM_039091078   ⟹   XP_038947006
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21389,439,821 - 89,447,958 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_073169   ⟸   NM_022678
- UniProtKB: Q9JKY3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006250390   ⟸   XM_006250328
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006250392   ⟸   XM_006250330
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006250393   ⟸   XM_006250331
- Peptide Label: isoform X2
- UniProtKB: G3V6J7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768022   ⟸   XM_008769800
- Peptide Label: isoform X2
- UniProtKB: G3V6J7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008768019   ⟸   XM_008769797
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008768021   ⟸   XM_008769799
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008768020   ⟸   XM_008769798
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017454415   ⟸   XM_017598926
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000005849   ⟸   ENSRNOT00000005849
RefSeq Acc Id: XP_038947000   ⟸   XM_039091072
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947004   ⟸   XM_039091076
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038947003   ⟸   XM_039091075
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947002   ⟸   XM_039091074
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947006   ⟸   XM_039091078
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038947001   ⟸   XM_039091073
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038947005   ⟸   XM_039091077
- 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)
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)
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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:621548 AgrOrtholog
Ensembl Genes ENSRNOG00000004423 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000005849 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000005849 ENTREZGENE, UniProtKB/TrEMBL
InterPro BTB/POZ_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SKP1/BTB/POZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64619 UniProtKB/Swiss-Prot
NCBI Gene 64619 ENTREZGENE
Pfam BTB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-C2H2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Zbtb18 PhenoGen
PROSITE BTB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART BTB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZnF_C2H2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54695 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57667 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3V6J7 ENTREZGENE, UniProtKB/TrEMBL
  Q9JKY3 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-06-28 Zbtb18  zinc finger and BTB domain containing 18  Zfp238  zinc finger protein 238  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Zfp238  zinc finger protein 238  Rp58  RP58 protein  Symbol and Name updated 1299863 APPROVED
2002-08-07 Rp58  RP58 protein      Symbol and Name status set to provisional 70820 PROVISIONAL