Cytl1 (cytokine like 1) - Rat Genome Database

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Gene: Cytl1 (cytokine like 1) Rattus norvegicus
Analyze
Symbol: Cytl1
Name: cytokine like 1
RGD ID: 1561846
Description: Predicted to be involved in positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including cartilage homeostasis; chondrocyte differentiation; and chondroitin sulfate proteoglycan biosynthetic process. Orthologous to human CYTL1 (cytokine like 1); INTERACTS WITH 1-naphthyl isothiocyanate; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cytokine-like protein 1; LOC498392; RGD1561846; similar to Cytokine-like protein C17 precursor (UNQ1942/PRO4425)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
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
GRCr81477,278,635 - 77,283,645 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1477,278,636 - 77,283,645 (-)EnsemblGRCr8
mRatBN7.21473,053,876 - 73,058,886 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1473,053,877 - 73,058,886 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1477,508,028 - 77,513,034 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01478,748,888 - 78,753,890 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01475,189,427 - 75,194,462 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01477,805,137 - 77,810,147 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1477,805,130 - 77,810,147 (-)Ensemblrn6Rnor6.0
Rnor_5.01477,783,865 - 77,788,875 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41478,349,878 - 78,354,888 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1472,016,197 - 72,021,228 (-)NCBICelera
Cytogenetic Map14q21NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:17644814   PMID:21652695   PMID:21795542  


Genomics

Comparative Map Data
Cytl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81477,278,635 - 77,283,645 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1477,278,636 - 77,283,645 (-)EnsemblGRCr8
mRatBN7.21473,053,876 - 73,058,886 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1473,053,877 - 73,058,886 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1477,508,028 - 77,513,034 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01478,748,888 - 78,753,890 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01475,189,427 - 75,194,462 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01477,805,137 - 77,810,147 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1477,805,130 - 77,810,147 (-)Ensemblrn6Rnor6.0
Rnor_5.01477,783,865 - 77,788,875 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41478,349,878 - 78,354,888 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1472,016,197 - 72,021,228 (-)NCBICelera
Cytogenetic Map14q21NCBI
CYTL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3845,014,586 - 5,019,458 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl45,014,586 - 5,019,486 (-)Ensemblhg38GRCh38
GRCh3745,016,313 - 5,021,185 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3645,067,214 - 5,072,098 (-)NCBIBuild 36Build 36hg18NCBI36
Build 3445,134,387 - 5,139,269NCBI
Celera44,913,525 - 4,918,414 (-)NCBICelera
Cytogenetic Map4p16.2NCBI
HuRef44,952,728 - 4,957,617 (-)NCBIHuRef
CHM1_145,014,307 - 5,019,195 (-)NCBICHM1_1
T2T-CHM13v2.044,984,228 - 4,989,105 (-)NCBIT2T-CHM13v2.0
Cytl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39537,892,863 - 37,897,164 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl537,892,863 - 37,897,164 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38537,735,519 - 37,739,820 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl537,735,519 - 37,739,820 (+)Ensemblmm10GRCm38
MGSCv37538,126,758 - 38,131,059 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36538,023,768 - 38,028,069 (+)NCBIMGSCv36mm8
Celera535,191,397 - 35,195,691 (+)NCBICelera
Cytogenetic Map5B3NCBI
cM Map520.21NCBI
Cytl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555144,826,755 - 4,831,951 (+)Ensembl
ChiLan1.0NW_0049555144,826,792 - 4,831,424 (+)NCBIChiLan1.0ChiLan1.0
CYTL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v235,280,955 - 5,286,058 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan145,214,116 - 5,219,213 (-)NCBINHGRI_mPanPan1
PanPan1.145,092,567 - 5,097,456 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl45,092,144 - 5,098,092 (-)EnsemblpanPan2panpan1.1
CYTL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1370,354,099 - 70,358,521 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl370,354,090 - 70,359,128 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha372,904,811 - 72,909,240 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0371,113,282 - 71,117,712 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl371,113,283 - 71,117,907 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1370,384,321 - 70,388,747 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0370,544,734 - 70,549,165 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0370,929,545 - 70,933,976 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cytl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528563,807,132 - 63,813,091 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647717,508,823 - 17,512,663 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647717,508,833 - 17,512,608 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CYTL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl85,455,671 - 5,460,861 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.185,455,576 - 5,460,861 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.285,266,914 - 5,272,133 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CYTL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12741,187,925 - 41,192,768 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2741,187,828 - 41,192,690 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604787,982,211 - 87,987,014 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cytl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475521,968,570 - 21,973,397 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475521,968,360 - 21,972,986 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Cytl1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11167,445,335 - 67,450,363 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cytl1
14 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:429
Count of miRNA genes:215
Interacting mature miRNAs:261
Transcripts:ENSRNOT00000035427
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143802371083023710Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1459848686104848686Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143900944484009444Rat
70153Bp59Blood pressure QTL 593.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)147297021087582095Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143067446985041098Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1433424686102238540Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1474255551109089856Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143802371083023710Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1462398852107398852Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1460854936105854936Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1474255551109089856Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1459848686104848686Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144261625899224555Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143802371083023710Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)146592028399224555Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143941117087582095Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143802371083023710Rat

Markers in Region
RH137253  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81477,278,694 - 77,278,875 (+)Marker Load Pipeline
mRatBN7.21473,053,935 - 73,054,116 (+)MAPPERmRatBN7.2
Rnor_6.01477,805,197 - 77,805,377NCBIRnor6.0
Rnor_5.01477,783,925 - 77,784,105UniSTSRnor5.0
RGSC_v3.41478,349,938 - 78,350,118UniSTSRGSC3.4
Celera1472,016,257 - 72,016,437UniSTS
Cytogenetic Map14q21UniSTS
RH139823  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21473,054,865 - 73,055,050 (+)MAPPERmRatBN7.2
Rnor_6.01477,806,127 - 77,806,311NCBIRnor6.0
Rnor_5.01477,784,855 - 77,785,039UniSTSRnor5.0
RGSC_v3.41478,350,868 - 78,351,052UniSTSRGSC3.4
Celera1472,017,187 - 72,017,371UniSTS
Cytogenetic Map14q21UniSTS


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
10 12 65 132 71 70 39 40 39 6 272 138 11 106 77 90 31 1 1

Sequence


Ensembl Acc Id: ENSRNOT00000035427   ⟹   ENSRNOP00000030763
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1477,278,636 - 77,283,645 (-)Ensembl
mRatBN7.2 Ensembl1473,053,877 - 73,058,886 (-)Ensembl
Rnor_6.0 Ensembl1477,805,130 - 77,810,147 (-)Ensembl
RefSeq Acc Id: NM_001134604   ⟹   NP_001128076
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81477,278,635 - 77,283,645 (-)NCBI
mRatBN7.21473,053,876 - 73,058,886 (-)NCBI
Rnor_6.01477,805,137 - 77,810,147 (-)NCBI
Rnor_5.01477,783,865 - 77,788,875 (-)NCBI
RGSC_v3.41478,349,878 - 78,354,888 (-)RGD
Celera1472,016,197 - 72,021,228 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001128076 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI69053 (Get FASTA)   NCBI Sequence Viewer  
  EDM00022 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000030763
  ENSRNOP00000030763.4
RefSeq Acc Id: NP_001128076   ⟸   NM_001134604
- Peptide Label: precursor
- UniProtKB: B5DFG7 (UniProtKB/TrEMBL),   A6IJV8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000030763   ⟸   ENSRNOT00000035427

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DFG7-F1-model_v2 AlphaFold B5DFG7 1-137 view protein structure

Transcriptome

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

Promoters
RGD ID:13699372
Promoter ID:EPDNEW_R9897
Type:single initiation site
Name:Cytl1_1
Description:cytokine 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_6.01477,810,151 - 77,810,211EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561846 AgrOrtholog
BioCyc Gene G2FUF-15365 BioCyc
Ensembl Genes ENSRNOG00000028108 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000035427 ENTREZGENE
  ENSRNOT00000035427.7 UniProtKB/TrEMBL
InterPro CYTL1 UniProtKB/TrEMBL
KEGG Report rno:498392 UniProtKB/TrEMBL
NCBI Gene 498392 ENTREZGENE
PANTHER CYTOKINE-LIKE PROTEIN 1 UniProtKB/TrEMBL
  PTHR15974 UniProtKB/TrEMBL
Pfam CYTL1 UniProtKB/TrEMBL
PhenoGen Cytl1 PhenoGen
RatGTEx ENSRNOG00000028108 RatGTEx
UniProt A6IJV8 ENTREZGENE, UniProtKB/TrEMBL
  B5DFG7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-29 Cytl1  cytokine like 1  RGD1561846_predicted  similar to Cytokine-like protein C17 precursor (UNQ1942/PRO4425) (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1561846_predicted  similar to Cytokine-like protein C17 precursor (UNQ1942/PRO4425) (predicted)  LOC498392  similar to Cytokine-like protein C17 precursor (UNQ1942/PRO4425)  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498392  similar to Cytokine-like protein C17 precursor (UNQ1942/PRO4425)      Symbol and Name status set to provisional 70820 PROVISIONAL