Clp1 (cleavage factor polyribonucleotide kinase subunit 1) - Rat Genome Database

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Gene: Clp1 (cleavage factor polyribonucleotide kinase subunit 1) Rattus norvegicus
Analyze
Symbol: Clp1
Name: cleavage factor polyribonucleotide kinase subunit 1
RGD ID: 1307679
Description: Predicted to enable ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity and ATP-dependent polyribonucleotide 5'-hydroxyl-kinase activity. Predicted to be involved in cerebellar cortex development; negative regulation of gene expression; and tRNA splicing, via endonucleolytic cleavage and ligation. Predicted to be located in cytosol and nucleoplasm. Predicted to be part of tRNA-intron endonuclease complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 10. Orthologous to human CLP1 (cleavage factor polyribonucleotide kinase subunit 1); PARTICIPATES IN 3'-end pre-mRNA processing pathway; RNA polymerase II transcription termination pathway; tRNA maturation pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-diaminodiphenylmethane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ATP/GTP-binding protein; cleavage and polyadenylation factor I subunit 1; CLP1, cleavage and polyadenylation factor I subunit, homolog; CLP1, cleavage and polyadenylation factor I subunit, homolog (S. cerevisiae); Heab; LOC311166; MGC94928; polyadenylation factor Clp1; polynucleotide kinase Clp1; polyribonucleotide 5'-hydroxyl-kinase Clp1; pre-mRNA cleavage complex II protein Clp1; RGD1307679; similar to ATP/GTP-binding protein
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
GRCr8390,213,461 - 90,217,165 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl390,213,465 - 90,217,538 (-)EnsemblGRCr8
mRatBN7.2369,806,774 - 69,818,633 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl369,806,778 - 69,810,421 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx373,188,581 - 73,192,284 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0381,787,243 - 81,790,946 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0379,546,170 - 79,549,873 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0372,125,269 - 72,137,122 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl372,125,273 - 72,128,973 (-)Ensemblrn6Rnor6.0
Rnor_5.0378,645,908 - 78,657,782 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4367,934,068 - 67,937,772 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera369,162,457 - 69,166,161 (-)NCBICelera
RGSC_v3.1367,830,439 - 67,834,144 (-)NCBI
Cytogenetic Map3q24NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,2-dichloroethane  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-lapachone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibric acid  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
dexamethasone  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
flutamide  (EXP)
formaldehyde  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
indometacin  (ISO)
leflunomide  (ISO)
methapyrilene  (EXP)
methyl methanesulfonate  (ISO)
N-nitrosodimethylamine  (EXP)
nitrates  (ISO)
panobinostat  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
potassium dichromate  (ISO)
quercetin  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sulindac sulfide  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Pre-mRNA 3'-end processing complex assembly and function. Chan S, etal., Wiley Interdiscip Rev RNA. 2011 May-Jun;2(3):321-35. doi: 10.1002/wrna.54. Epub 2010 Oct 18.
2. 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.
3. Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors. Gruber AR, etal., Wiley Interdiscip Rev RNA. 2014 Mar-Apr;5(2):183-96. doi: 10.1002/wrna.1206. Epub 2013 Nov 14.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
6. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Comprehensive gene review and curation RGD comprehensive gene curation
10. Handling tRNA introns, archaeal way and eukaryotic way. Yoshihisa T Front Genet. 2014 Jul 10;5:213. doi: 10.3389/fgene.2014.00213. eCollection 2014.
Additional References at PubMed
PMID:12477932   PMID:17495927   PMID:24766809   PMID:24766810   PMID:25931508  


Genomics

Comparative Map Data
Clp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8390,213,461 - 90,217,165 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl390,213,465 - 90,217,538 (-)EnsemblGRCr8
mRatBN7.2369,806,774 - 69,818,633 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl369,806,778 - 69,810,421 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx373,188,581 - 73,192,284 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0381,787,243 - 81,790,946 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0379,546,170 - 79,549,873 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0372,125,269 - 72,137,122 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl372,125,273 - 72,128,973 (-)Ensemblrn6Rnor6.0
Rnor_5.0378,645,908 - 78,657,782 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4367,934,068 - 67,937,772 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera369,162,457 - 69,166,161 (-)NCBICelera
RGSC_v3.1367,830,439 - 67,834,144 (-)NCBI
Cytogenetic Map3q24NCBI
CLP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381157,657,762 - 57,661,865 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1157,648,188 - 57,661,865 (+)Ensemblhg38GRCh38
GRCh371157,425,234 - 57,429,337 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361157,181,206 - 57,185,913 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1154,781,701 - 54,785,822 (+)NCBICelera
Cytogenetic Map11q12.1NCBI
HuRef1153,774,137 - 53,778,258 (+)NCBIHuRef
CHM1_11157,291,424 - 57,295,545 (+)NCBICHM1_1
T2T-CHM13v2.01157,607,935 - 57,612,038 (+)NCBIT2T-CHM13v2.0
Clp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39284,553,466 - 84,557,631 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl284,552,448 - 84,557,694 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38284,723,122 - 84,727,287 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl284,722,104 - 84,727,350 (-)Ensemblmm10GRCm38
MGSCv37284,563,279 - 84,567,425 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36284,523,961 - 84,528,107 (-)NCBIMGSCv36mm8
Celera286,318,290 - 86,322,440 (-)NCBICelera
Cytogenetic Map2DNCBI
cM Map249.45NCBI
Clp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555112,588,825 - 2,593,192 (+)Ensembl
ChiLan1.0NW_0049555112,588,825 - 2,592,108 (+)NCBIChiLan1.0ChiLan1.0
CLP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2958,794,718 - 58,818,214 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11159,826,329 - 59,838,193 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01152,898,181 - 52,902,656 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11156,368,732 - 56,373,129 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1156,368,433 - 56,373,129 (+)EnsemblpanPan2panpan1.1
CLP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11838,528,700 - 38,531,899 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1838,528,621 - 38,530,846 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1838,075,104 - 38,078,316 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01839,210,508 - 39,213,726 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1839,210,508 - 39,213,629 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11838,793,608 - 38,796,826 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01838,366,628 - 38,369,840 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01838,997,368 - 39,000,586 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Clp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494714,756,010 - 14,759,418 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365814,869,686 - 4,873,217 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365814,870,126 - 4,873,158 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl213,282,164 - 13,285,162 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1213,282,157 - 13,285,208 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2212,915,349 - 12,918,466 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1115,568,984 - 15,573,849 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl115,568,976 - 15,573,082 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666038112,920,089 - 112,924,752 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248643,063,555 - 3,067,051 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248643,063,555 - 3,067,045 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Clp1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1562,104,263 - 62,107,998 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Clp1
67 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:63
Count of miRNA genes:52
Interacting mature miRNAs:61
Transcripts:ENSRNOT00000009726
Prediction methods: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
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)351490129111359995Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)373592611110333156Rat
1358293Bw38Body weight QTL 3860.0000031body mass (VT:0001259)body weight (CMO:0000012)374364268119364268Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)373592512136118980Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)35365182698651826Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)34887661993876619Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)34887661993876619Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)33540319997383526Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)367641776167835660Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)358601291153936591Rat
631832Sach1Saccharin preference QTL 12.70.02consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)34790417292904172Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)349872657138829559Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)385062224136118980Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)35109256196092561Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)385062224136118980Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)34865774493657744Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)381425008141509147Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)370845569136091483Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)379649560177741895Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)358925062103925062Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)370311536115311536Rat
631200Cm25Cardiac mass QTL 254.80.0001heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)381541464126563126Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)34865774493657744Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)35076614595766145Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)35109256196092561Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)336721849110333156Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)35076614595766145Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)34865774493657744Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)342158111124558371Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)34865774493657744Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)34865774493657744Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)342158111124558371Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat

Markers in Region
RH128883  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2369,806,899 - 69,807,079 (+)MAPPERmRatBN7.2
Rnor_6.0372,125,395 - 72,125,574NCBIRnor6.0
Rnor_5.0378,646,034 - 78,646,213UniSTSRnor5.0
RGSC_v3.4367,934,194 - 67,934,373UniSTSRGSC3.4
Celera369,162,583 - 69,162,762UniSTS
Cytogenetic Map3q24UniSTS
RH144001  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2369,809,376 - 69,809,622 (+)MAPPERmRatBN7.2
Rnor_6.0372,127,872 - 72,128,117NCBIRnor6.0
Rnor_5.0378,648,511 - 78,648,756UniSTSRnor5.0
RGSC_v3.4367,936,671 - 67,936,916UniSTSRGSC3.4
Celera369,165,060 - 69,165,305UniSTS
Cytogenetic Map3q24UniSTS
RH139104  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2369,808,993 - 69,809,158 (+)MAPPERmRatBN7.2
Rnor_6.0372,127,489 - 72,127,653NCBIRnor6.0
Rnor_5.0378,648,128 - 78,648,292UniSTSRnor5.0
RGSC_v3.4367,936,288 - 67,936,452UniSTSRGSC3.4
Celera369,164,677 - 69,164,841UniSTS
Cytogenetic Map3q24UniSTS


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 67 165 91 90 59 92 59 6 355 192 11 144 80 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000009726   ⟹   ENSRNOP00000009726
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl390,213,465 - 90,217,538 (-)Ensembl
mRatBN7.2 Ensembl369,806,778 - 69,810,421 (-)Ensembl
Rnor_6.0 Ensembl372,125,273 - 72,128,973 (-)Ensembl
RefSeq Acc Id: NM_001009599   ⟹   NP_001009599
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8390,213,461 - 90,217,165 (-)NCBI
mRatBN7.2369,806,774 - 69,810,478 (-)NCBI
Rnor_6.0372,125,269 - 72,128,973 (-)NCBI
Rnor_5.0378,645,908 - 78,657,782 (-)NCBI
RGSC_v3.4367,934,068 - 67,937,772 (-)RGD
Celera369,162,457 - 69,166,161 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001009599 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH87130 (Get FASTA)   NCBI Sequence Viewer  
  EDL79312 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000009726.4
GenBank Protein Q5PQL4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001009599   ⟸   NM_001009599
- UniProtKB: Q5PQL4 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000009726   ⟸   ENSRNOT00000009726

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5PQL4-F1-model_v2 AlphaFold Q5PQL4 1-425 view protein structure

Transcriptome

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

Promoters
RGD ID:13692181
Promoter ID:EPDNEW_R2706
Type:multiple initiation site
Name:Clp1_1
Description:cleavage and polyadenylation factor I subunit 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_6.0372,128,910 - 72,128,970EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307679 AgrOrtholog
BioCyc Gene G2FUF-49166 BioCyc
Ensembl Genes ENSRNOG00000007416 Ensembl, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000009726.6 UniProtKB/Swiss-Prot
Gene3D-CATH 2.40.30.330 UniProtKB/Swiss-Prot
  2.60.120.1030 UniProtKB/Swiss-Prot
  3.40.50.300 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7112583 IMAGE-MGC_LOAD
InterPro Clp1 UniProtKB/Swiss-Prot
  Clp1/Grc3 UniProtKB/Swiss-Prot
  Clp1_C UniProtKB/Swiss-Prot
  Clp1_C_sf UniProtKB/Swiss-Prot
  Clp1_N UniProtKB/Swiss-Prot
  Clp1_N_sf UniProtKB/Swiss-Prot
  CLP1_P UniProtKB/Swiss-Prot
  P-loop_NTPase UniProtKB/Swiss-Prot
KEGG Report rno:311166 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94928 IMAGE-MGC_LOAD
NCBI Gene 311166 ENTREZGENE
PANTHER POLYRIBONUCLEOTIDE 5'-HYDROXYL-KINASE CLP1 UniProtKB/Swiss-Prot
  PTHR12755 UniProtKB/Swiss-Prot
Pfam Clp1 UniProtKB/Swiss-Prot
  CLP1_N UniProtKB/Swiss-Prot
  CLP1_P UniProtKB/Swiss-Prot
PhenoGen Clp1 PhenoGen
RatGTEx ENSRNOG00000007416 RatGTEx
Superfamily-SCOP SSF52540 UniProtKB/Swiss-Prot
UniProt CLP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-11-11 Clp1  cleavage factor polyribonucleotide kinase subunit 1  Clp1  cleavage and polyadenylation factor I subunit 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-11 Clp1  cleavage and polyadenylation factor I subunit 1  Clp1  CLP1, cleavage and polyadenylation factor I subunit, homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Clp1  CLP1, cleavage and polyadenylation factor I subunit, homolog (S. cerevisiae)  RGD1307679  similar to ATP/GTP-binding protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 RGD1307679  similar to ATP/GTP-binding protein  RGD1307679_predicted  similar to ATP/GTP-binding protein (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-20 RGD1307679_predicted  similar to ATP/GTP-binding protein (predicted)  LOC311166_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC311166_predicted  similar to ATP/GTP-binding protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL