Uckl1 (uridine-cytidine kinase 1-like 1) - Rat Genome Database
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Gene: Uckl1 (uridine-cytidine kinase 1-like 1) Rattus norvegicus
Analyze
Symbol: Uckl1
Name: uridine-cytidine kinase 1-like 1
RGD ID: 1565465
Description: Predicted to have kinase activity. Predicted to be involved in nucleobase-containing small molecule metabolic process and phosphorylation. Orthologous to human UCKL1 (uridine-cytidine kinase 1 like 1); PARTICIPATES IN beta-ureidopropionase deficiency pathway; dihydropyrimidinase deficiency pathway; mitochondrial neurogastrointestinal encephalopathy syndrome pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; cadmium dichloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: LOC499956; RGD1565465; similar to Uridine-cytidine kinase 1-like 1; uridine-cytidine kinase-like 1
Orthologs:
Homo sapiens (human) : UCKL1 (uridine-cytidine kinase 1 like 1)  HGNC  Alliance
Mus musculus (house mouse) : Uckl1 (uridine-cytidine kinase 1-like 1)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Uckl1 (uridine-cytidine kinase 1 like 1)
Pan paniscus (bonobo/pygmy chimpanzee) : UCKL1 (uridine-cytidine kinase 1 like 1)
Canis lupus familiaris (dog) : UCKL1 (uridine-cytidine kinase 1 like 1)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Uckl1 (uridine-cytidine kinase 1 like 1)
Sus scrofa (pig) : UCKL1 (uridine-cytidine kinase 1 like 1)
Chlorocebus sabaeus (African green monkey) : UCKL1 (uridine-cytidine kinase 1 like 1)
Heterocephalus glaber (naked mole-rat) : Uckl1 (uridine-cytidine kinase 1 like 1)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.03177,066,022 - 177,078,611 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,066,014 - 177,078,594 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,775,487 - 180,788,073 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,707,803 - 170,720,880 (-)NCBIRGSC3.4rn4RGSC3.4
Celera3163,900,156 - 163,912,730 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Molecular Function

References

Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Uckl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.03177,066,022 - 177,078,611 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,066,014 - 177,078,594 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,775,487 - 180,788,073 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,707,803 - 170,720,880 (-)NCBIRGSC3.4rn4RGSC3.4
Celera3163,900,156 - 163,912,730 (+)NCBICelera
Cytogenetic Map3q43NCBI
UCKL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2063,939,829 - 63,956,416 (-)EnsemblGRCh38hg38GRCh38
GRCh382063,939,829 - 63,956,447 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372062,571,182 - 62,587,800 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362062,041,630 - 62,058,212 (-)NCBINCBI36hg18NCBI36
Build 342062,041,634 - 62,058,212NCBI
Celera2059,255,043 - 59,274,434 (-)NCBI
Cytogenetic Map20q13.33NCBI
HuRef2059,304,567 - 59,323,105 (-)NCBIHuRef
CHM1_12062,471,794 - 62,488,226 (-)NCBICHM1_1
Uckl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392181,210,942 - 181,223,820 (-)NCBI
GRCm382181,569,149 - 181,582,027 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,569,149 - 181,584,892 (-)EnsemblGRCm38mm10GRCm38
MGSCv372181,303,857 - 181,316,678 (-)NCBIGRCm37mm9NCBIm37
MGSCv362181,498,559 - 181,511,380 (-)NCBImm8
Celera2185,650,746 - 185,663,572 (-)NCBICelera
Cytogenetic Map2H4NCBI
Uckl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955528297,952 - 311,306 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955528297,952 - 311,306 (+)NCBIChiLan1.0ChiLan1.0
UCKL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12061,860,084 - 61,876,202 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2061,860,084 - 61,876,194 (-)Ensemblpanpan1.1panPan2
UCKL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2447,412,521 - 47,432,860 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12447,412,520 - 47,423,222 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Uckl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493651411,144,641 - 11,156,470 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UCKL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,785,419 - 62,807,552 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,785,419 - 62,796,396 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
UCKL1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl2282,365 - 299,099 (+)Ensembl
ChlSab1.12282,267 - 299,148 (+)NCBI
Uckl1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474129,568,980 - 29,581,923 (-)NCBI

Position Markers
RH139487  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03177,066,168 - 177,066,447NCBIRnor6.0
Rnor_5.03180,775,618 - 180,775,897UniSTSRnor5.0
RGSC_v3.43170,707,934 - 170,708,213UniSTSRGSC3.4
Celera3163,912,320 - 163,912,599UniSTS
Cytogenetic Map3q43UniSTS
RH 3.4 Map31551.9UniSTS
MARC_26200-26201:1030734098:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03177,070,111 - 177,071,065NCBIRnor6.0
Rnor_5.03180,779,561 - 180,780,515UniSTSRnor5.0
RGSC_v3.43170,711,877 - 170,712,831UniSTSRGSC3.4
Celera3163,907,702 - 163,908,656UniSTS
Cytogenetic Map3q43UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3138374177177699992Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)345406058177699992Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3150368003177699992Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3138374177177699992Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3153918022177699992Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3129787213177699992Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3146232777177699992Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3170428815177699992Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3139578365177699992Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3153412455177699992Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3148034701177699992Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:81
Interacting mature miRNAs:86
Transcripts:ENSRNOT00000020695
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 35 28 12 19 12 8 11 74 35 40 11 8
Low 8 29 29 29 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020695   ⟹   ENSRNOP00000020695
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3177,066,014 - 177,078,594 (-)Ensembl
RefSeq Acc Id: NM_001109212   ⟹   NP_001102682
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,066,037 - 177,078,611 (-)NCBI
Rnor_5.03180,775,487 - 180,788,073 (-)NCBI
RGSC_v3.43170,707,803 - 170,720,880 (-)RGD
Celera3163,900,156 - 163,912,730 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235793   ⟹   XP_006235855
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,066,022 - 177,077,679 (-)NCBI
Rnor_5.03180,775,487 - 180,788,073 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006235794   ⟹   XP_006235856
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,066,022 - 177,077,679 (-)NCBI
Rnor_5.03180,775,487 - 180,788,073 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006235795   ⟹   XP_006235857
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,066,022 - 177,077,679 (-)NCBI
Rnor_5.03180,775,487 - 180,788,073 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006235796   ⟹   XP_006235858
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,066,022 - 177,078,452 (-)NCBI
Rnor_5.03180,775,487 - 180,788,073 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006235797   ⟹   XP_006235859
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,066,022 - 177,078,452 (-)NCBI
Rnor_5.03180,775,487 - 180,788,073 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001102682   ⟸   NM_001109212
- UniProtKB: D3ZYQ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235859   ⟸   XM_006235797
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_006235858   ⟸   XM_006235796
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006235857   ⟸   XM_006235795
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_006235855   ⟸   XM_006235793
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006235856   ⟸   XM_006235794
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000020695   ⟸   ENSRNOT00000020695
Protein Domains
PRK

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13692759
Promoter ID:EPDNEW_R3282
Type:multiple initiation site
Name:Uckl1_1
Description:uridine-cytidine kinase 1-like 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03177,078,585 - 177,078,645EPDNEW

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)
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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHRSP/Gcrc (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
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 180784672 180784673 G T snv LEC/Tj (KyushuU)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 170708014 170708015 C T snv SS/JrHsdMcwi (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565465 AgrOrtholog
Ensembl Genes ENSRNOG00000050277 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020695 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020695 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.2020 UniProtKB/TrEMBL
InterPro P-loop_NTPase UniProtKB/TrEMBL
  PRibTrfase_dom UniProtKB/TrEMBL
  PRK/URK UniProtKB/TrEMBL
  PRTase-like UniProtKB/TrEMBL
  UCKL1 UniProtKB/TrEMBL
  Uridine_kinase UniProtKB/TrEMBL
KEGG Report rno:499956 UniProtKB/TrEMBL
NCBI Gene 499956 ENTREZGENE
PANTHER PTHR10285:SF68 UniProtKB/TrEMBL
Pfam PRK UniProtKB/TrEMBL
PhenoGen Uckl1 PhenoGen
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
  SSF53271 UniProtKB/TrEMBL
TIGRFAMs udk UniProtKB/TrEMBL
UniGene Rn.35240 ENTREZGENE
UniProt D3ZYQ8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Uckl1  uridine-cytidine kinase 1-like 1  RGD1565465_predicted  similar to Uridine-cytidine kinase 1-like 1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1565465_predicted  similar to Uridine-cytidine kinase 1-like 1 (predicted)  LOC499956  similar to Uridine-cytidine kinase 1-like 1  Symbol and Name status set to approved 1299863 APPROVED