St18 (ST18 C2H2C-type zinc finger transcription factor) - Rat Genome Database
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Gene: St18 (ST18 C2H2C-type zinc finger transcription factor) Rattus norvegicus
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Symbol: St18
Name: ST18 C2H2C-type zinc finger transcription factor
RGD ID: 708566
Description: Exhibits RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in negative regulation of transcription by RNA polymerase II. Localizes to nucleus. Orthologous to human ST18 (ST18 C2H2C-type zinc finger transcription factor); INTERACTS WITH 6-propyl-2-thiouracil; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: C2-HC type zinc finger protein r-MyT3; neural zinc finger factor 3; NZF-3; Nzf3; r-MyT3; ST18, C2H2C-type zinc finger; suppression of tumorigenicity 18; suppression of tumorigenicity 18 protein; suppression of tumorigenicity protein 18
Orthologs:
Homo sapiens (human) : ST18 (ST18 C2H2C-type zinc finger transcription factor)  HGNC  Alliance
Mus musculus (house mouse) : St18 (suppression of tumorigenicity 18)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : St18 (ST18 C2H2C-type zinc finger transcription factor)
Pan paniscus (bonobo/pygmy chimpanzee) : LOC100975471 (suppression of tumorigenicity 18 protein)
Canis lupus familiaris (dog) : ST18 (ST18 C2H2C-type zinc finger transcription factor)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : St18 (ST18 C2H2C-type zinc finger transcription factor)
Sus scrofa (pig) : ST18 (ST18 C2H2C-type zinc finger transcription factor)
Chlorocebus sabaeus (African green monkey) : ST18 (ST18 C2H2C-type zinc finger transcription factor)
Heterocephalus glaber (naked mole-rat) : St18 (ST18 C2H2C-type zinc finger transcription factor)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0512,437,617 - 12,787,223 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl512,437,525 - 12,563,429 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0517,211,877 - 17,558,736 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4512,667,083 - 12,794,377 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1512,667,789 - 12,757,054 (-)NCBI
Celera512,004,612 - 12,128,698 (-)NCBICelera
Cytogenetic Map5q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

Additional References at PubMed
PMID:15489893   PMID:18676404   PMID:24509857  


Genomics

Comparative Map Data
St18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0512,437,617 - 12,787,223 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl512,437,525 - 12,563,429 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0517,211,877 - 17,558,736 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4512,667,083 - 12,794,377 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1512,667,789 - 12,757,054 (-)NCBI
Celera512,004,612 - 12,128,698 (-)NCBICelera
Cytogenetic Map5q12NCBI
ST18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl852,110,839 - 52,460,959 (-)EnsemblGRCh38hg38GRCh38
GRCh38852,110,836 - 52,409,879 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37853,023,392 - 53,322,439 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36853,185,952 - 53,484,856 (-)NCBINCBI36hg18NCBI36
Build 34853,185,951 - 53,484,856NCBI
Celera849,013,896 - 49,312,800 (-)NCBI
Cytogenetic Map8q11.23NCBI
HuRef848,491,480 - 48,790,797 (-)NCBIHuRef
CHM1_1853,075,494 - 53,374,880 (-)NCBICHM1_1
St18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3916,557,455 - 6,931,164 (+)NCBI
GRCm3816,487,231 - 6,860,940 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl16,487,231 - 6,860,940 (+)EnsemblGRCm38mm10GRCm38
MGSCv3716,720,132 - 6,851,021 (+)NCBIGRCm37mm9NCBIm37
MGSCv3616,720,132 - 6,851,021 (+)NCBImm8
Celera16,710,574 - 6,841,534 (+)NCBICelera
Cytogenetic Map1A1NCBI
St18
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545411,713,162 - 11,924,284 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545411,715,538 - 12,016,396 (-)NCBIChiLan1.0ChiLan1.0
LOC100975471
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1845,913,225 - 46,056,607 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl845,913,225 - 46,016,468 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0848,528,831 - 48,832,588 (-)NCBIMhudiblu_PPA_v0panPan3
ST18
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl293,974,157 - 4,080,067 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1293,971,851 - 4,266,642 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
St18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936590737,086 - 798,433 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ST18
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl477,748,810 - 78,002,009 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1477,707,143 - 78,002,016 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2484,961,281 - 85,183,932 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ST18
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl848,214,374 - 48,319,061 (-)Ensembl
ChlSab1.1848,214,764 - 48,521,428 (-)NCBI
St18
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247352,987,832 - 3,343,680 (+)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5189432042Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5193273395Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51136640934Rat
2312562Pur18Proteinuria QTL 182.60.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5152509833001026Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5152509878720537Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5166658771552720Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5325132926252076Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5325132948722188Rat
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)5452573847978104Rat
631827Alc4Alcohol consumption QTL 43.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)5787561118592319Rat
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5863228553632285Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)59514842103580403Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512651967117554267Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:245
Count of miRNA genes:169
Interacting mature miRNAs:187
Transcripts:ENSRNOT00000059625
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 47
Low 2 14 7 27 1 29 10
Below cutoff 1 10 16 14 12 14 8 8 12 12 1 8

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_153310 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763489 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763490 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008763492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593172 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593173 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593174 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AABR07046956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07046957 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07046958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07046959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07046960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07046961 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07046962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AABR07046963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01034437 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AAHX01034438 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF031942 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473984 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO394514 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U67080 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000059625   ⟹   ENSRNOP00000056380
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl512,439,234 - 12,563,429 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000091649   ⟹   ENSRNOP00000072462
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl512,437,525 - 12,541,019 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092104   ⟹   ENSRNOP00000075382
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl512,439,941 - 12,526,962 (-)Ensembl
RefSeq Acc Id: NM_153310   ⟹   NP_695222
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0512,439,234 - 12,563,429 (-)NCBI
Rnor_5.0517,211,877 - 17,558,736 (-)NCBI
RGSC_v3.4512,667,083 - 12,794,377 (-)RGD
Celera512,004,612 - 12,128,698 (-)RGD
Sequence:
RefSeq Acc Id: XM_008763489   ⟹   XP_008761711
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0512,437,617 - 12,559,697 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763490   ⟹   XP_008761712
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0512,437,617 - 12,565,727 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008763492   ⟹   XP_008761714
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0512,437,617 - 12,559,697 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593172   ⟹   XP_017448661
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0512,437,617 - 12,555,993 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593173   ⟹   XP_017448662
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0512,437,617 - 12,787,223 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017593174   ⟹   XP_017448663
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0512,437,617 - 12,559,697 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_695222   ⟸   NM_153310
- UniProtKB: Q9QX27 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008761712   ⟸   XM_008763490
- Peptide Label: isoform X1
- UniProtKB: D3ZTP6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008761714   ⟸   XM_008763492
- Peptide Label: isoform X1
- UniProtKB: D3ZTP6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008761711   ⟸   XM_008763489
- Peptide Label: isoform X1
- UniProtKB: D3ZTP6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017448662   ⟸   XM_017593173
- Peptide Label: isoform X1
- UniProtKB: D3ZTP6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017448663   ⟸   XM_017593174
- Peptide Label: isoform X1
- UniProtKB: D3ZTP6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017448661   ⟸   XM_017593172
- Peptide Label: isoform X1
- UniProtKB: D3ZTP6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000075382   ⟸   ENSRNOT00000092104
RefSeq Acc Id: ENSRNOP00000056380   ⟸   ENSRNOT00000059625
RefSeq Acc Id: ENSRNOP00000072462   ⟸   ENSRNOT00000091649
Protein Domains
MYT1

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)
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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
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:708566 AgrOrtholog
Ensembl Genes ENSRNOG00000006200 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000056380 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072462 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075382 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000059625 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000091649 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000092104 UniProtKB/TrEMBL
InterPro Myelin_TF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_C2H2C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_C2H2C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:266680 UniProtKB/Swiss-Prot
NCBI Gene 266680 ENTREZGENE
Pfam MYT1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-C2HC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB ST18 RGD
PhenoGen St18 PhenoGen
PROSITE ZF_CCHHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF103637 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniGene Rn.91311 ENTREZGENE
UniProt A0A0G2KAF8_RAT UniProtKB/TrEMBL
  D3ZTP6 ENTREZGENE, UniProtKB/TrEMBL
  Q9QX27 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P70588 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-02 St18  ST18 C2H2C-type zinc finger transcription factor  St18  ST18, C2H2C-type zinc finger  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-03-21 St18  ST18, C2H2C-type zinc finger  St18  suppression of tumorigenicity 18  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-12-14 St18  suppression of tumorigenicity 18  Nzf3  neural zinc finger factor 3  Symbol and Name updated 1299863 APPROVED