Jrkl (JRK-like) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Jrkl (JRK-like) Rattus norvegicus
Analyze
Symbol: Jrkl
Name: JRK-like
RGD ID: 1308986
Description: Predicted to enable DNA binding activity. Predicted to be active in nucleus. Orthologous to human JRKL (JRK like); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: jerky homolog-like; jerky homolog-like (mouse); jerky protein homolog-like; jerky-like; LOC315417; RGD1308986; similar to jerky homolog-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8818,505,808 - 18,508,704 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl818,480,815 - 18,514,962 (-)EnsemblGRCr8
mRatBN7.2810,224,172 - 10,227,068 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl810,224,172 - 10,227,068 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx814,209,173 - 14,212,068 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0812,506,882 - 12,509,777 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0810,485,013 - 10,487,908 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0811,884,903 - 11,887,799 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl811,884,903 - 11,887,799 (-)Ensemblrn6Rnor6.0
Rnor_5.0811,842,434 - 11,845,330 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4810,114,758 - 10,117,654 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera811,723,329 - 11,726,225 (-)NCBICelera
RGSC_v3.1810,115,125 - 10,117,654 (-)NCBI
Cytogenetic Map8q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IBA,IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Comprehensive gene review and curation RGD comprehensive gene curation

Genomics

Comparative Map Data
Jrkl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8818,505,808 - 18,508,704 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl818,480,815 - 18,514,962 (-)EnsemblGRCr8
mRatBN7.2810,224,172 - 10,227,068 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl810,224,172 - 10,227,068 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx814,209,173 - 14,212,068 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0812,506,882 - 12,509,777 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0810,485,013 - 10,487,908 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0811,884,903 - 11,887,799 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl811,884,903 - 11,887,799 (-)Ensemblrn6Rnor6.0
Rnor_5.0811,842,434 - 11,845,330 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4810,114,758 - 10,117,654 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera811,723,329 - 11,726,225 (-)NCBICelera
RGSC_v3.1810,115,125 - 10,117,654 (-)NCBI
Cytogenetic Map8q11NCBI
JRKL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381196,390,013 - 96,393,561 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1196,389,989 - 96,507,574 (+)Ensemblhg38GRCh38
GRCh371196,123,177 - 96,126,725 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361195,763,462 - 95,766,375 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341195,763,461 - 95,766,375NCBI
Celera1193,423,358 - 93,426,927 (+)NCBICelera
Cytogenetic Map11q21NCBI
HuRef1192,189,878 - 92,193,447 (+)NCBIHuRef
CHM1_11196,006,512 - 96,010,080 (+)NCBICHM1_1
T2T-CHM13v2.01196,396,017 - 96,399,565 (+)NCBIT2T-CHM13v2.0
Jrkl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39913,242,795 - 13,245,746 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl913,242,612 - 13,245,834 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38913,242,790 - 13,245,741 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl913,242,607 - 13,245,829 (-)Ensemblmm10GRCm38
Celera910,600,838 - 10,603,789 (-)NCBICelera
Cytogenetic Map9A1NCBI
Jrkl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554121,209,788 - 1,211,362 (+)Ensembl
ChiLan1.0NW_0049554121,209,524 - 1,212,911 (+)NCBIChiLan1.0ChiLan1.0
JRKL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2997,237,566 - 97,241,104 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11198,329,015 - 98,333,385 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01191,397,097 - 91,401,426 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11194,921,562 - 94,925,135 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1194,922,218 - 94,923,792 (+)EnsemblpanPan2panpan1.1
JRKL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1214,778,209 - 4,784,452 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl214,782,386 - 4,783,960 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha214,786,442 - 4,795,906 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0214,945,936 - 4,955,426 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl214,951,480 - 4,955,410 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1214,736,110 - 4,745,113 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0214,806,485 - 4,815,949 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0214,854,264 - 4,863,747 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Jrkl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494781,163,447 - 81,167,784 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367001,378,925 - 1,382,201 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049367001,378,120 - 1,382,208 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JRKL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1187,654,838 - 87,658,114 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl187,655,482 - 87,657,056 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604338,148,275 - 38,151,834 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Jrkl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473541,217,825 - 41,220,727 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473541,217,786 - 41,220,975 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Jrkl
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v189,215,685 - 9,219,188 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Jrkl
22 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:109
Count of miRNA genes:88
Interacting mature miRNAs:98
Transcripts:ENSRNOT00000072420
Prediction methods:Microtar, Miranda, 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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357398Slep3Serum leptin concentration QTL 33.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81799410550763951Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81699464261994642Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)81038254055382540Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)81296416557964165Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)81595227960952279Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)81296416557964165Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81799386262252873Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)81038254055382540Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8132882639Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)81038254055382540Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81699464261994642Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)81296416557964165Rat
2302367Slep5Serum leptin concentration QTL 53.43blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)81799410550763951Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)81038254055382540Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 355 192 11 143 80 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000072420   ⟹   ENSRNOP00000064696
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl818,505,582 - 18,514,962 (-)Ensembl
mRatBN7.2 Ensembl810,224,172 - 10,227,068 (-)Ensembl
Rnor_6.0 Ensembl811,884,903 - 11,887,799 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000169734   ⟹   ENSRNOP00000111083
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl818,480,815 - 18,508,903 (-)Ensembl
RefSeq Acc Id: NM_001108122   ⟹   NP_001101592
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8818,505,808 - 18,508,704 (-)NCBI
mRatBN7.2810,224,172 - 10,227,068 (-)NCBI
Rnor_6.0811,884,903 - 11,887,799 (-)NCBI
Rnor_5.0811,842,434 - 11,845,330 (-)NCBI
RGSC_v3.4810,114,758 - 10,117,654 (-)RGD
Celera811,723,329 - 11,726,225 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001101592 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78498 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000064696
  ENSRNOP00000064696.1
  ENSRNOP00000111083.1
RefSeq Acc Id: NP_001101592   ⟸   NM_001108122
- UniProtKB: M0R5M5 (UniProtKB/TrEMBL),   A6JN68 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000064696   ⟸   ENSRNOT00000072420
Ensembl Acc Id: ENSRNOP00000111083   ⟸   ENSRNOT00000169734
Protein Domains
HTH CENPB-type   HTH psq-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R5M5-F1-model_v2 AlphaFold M0R5M5 1-524 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308986 AgrOrtholog
BioCyc Gene G2FUF-31717 BioCyc
Ensembl Genes ENSRNOG00000047133 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000072420 ENTREZGENE
  ENSRNOT00000072420.4 UniProtKB/TrEMBL
  ENSRNOT00000169734.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.420.10 UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
InterPro CenT-Element_Derived UniProtKB/TrEMBL
  DDE_SF_endonuclease_CENPB-like UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  HTH_CenpB_DNA-bd_dom UniProtKB/TrEMBL
  HTH_Psq UniProtKB/TrEMBL
  RNaseH_sf UniProtKB/TrEMBL
KEGG Report rno:315417 UniProtKB/TrEMBL
NCBI Gene 315417 ENTREZGENE
PANTHER JERKY PROTEIN HOMOLOG-LIKE UniProtKB/TrEMBL
  TRANSPOSON UniProtKB/TrEMBL
Pfam CENP-B_N UniProtKB/TrEMBL
  DDE_1 UniProtKB/TrEMBL
  HTH_Tnp_Tc5 UniProtKB/TrEMBL
PharmGKB JRKL RGD
PhenoGen Jrkl PhenoGen
PROSITE HTH_CENPB UniProtKB/TrEMBL
  HTH_PSQ UniProtKB/TrEMBL
RatGTEx ENSRNOG00000047133 RatGTEx
SMART CENPB UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A0ABK0M6V7_RAT UniProtKB/TrEMBL
  A6JN68 ENTREZGENE, UniProtKB/TrEMBL
  M0R5M5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-04-15 Jrkl  JRK-like  Jrkl  jerky-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-04-11 Jrkl  jerky-like  Jrkl  jerky homolog-like (mouse)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Jrkl  jerky homolog-like (mouse)   Jrkl_predicted  jerky homolog-like (mouse) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Jrkl_predicted  jerky homolog-like (mouse) (predicted)  RGD1308986_predicted  similar to jerky homolog-like (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1308986_predicted  similar to jerky homolog-like (predicted)  LOC315417_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC315417_predicted  similar to jerky homolog-like (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL