Pcf11 (PCF11 cleavage and polyadenylation factor subunit) - Rat Genome Database

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Gene: Pcf11 (PCF11 cleavage and polyadenylation factor subunit) Rattus norvegicus
Analyze
Symbol: Pcf11
Name: PCF11 cleavage and polyadenylation factor subunit
RGD ID: 1563397
Description: Predicted to enable RNA polymerase II complex binding activity and mRNA binding activity. Predicted to be involved in termination of RNA polymerase II transcription. Predicted to be located in mitochondrion and nucleoplasm. Predicted to be part of mRNA cleavage factor complex. Predicted to be active in cytoplasm and nucleus. Orthologous to human PCF11 (PCF11 cleavage and polyadenylation factor subunit); PARTICIPATES IN 3'-end pre-mRNA processing pathway; RNA polymerase II transcription termination pathway; mRNA decay pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: cleavage and polyadenylation factor subunit homolog; cleavage and polyadenylation factor subunit homolog (S. cerevisiae) ; LOC361605; PCF11, cleavage and polyadenylation factor subunit, homolog; PCF11, cleavage and polyadenylation factor subunit, homolog (S. cerevisiae); pre-mRNA cleavage complex 2 protein Pcf11; RGD1563397; similar to mKIAA0824 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81156,109,724 - 156,136,950 (-)NCBIGRCr8
mRatBN7.21146,694,045 - 146,724,030 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1146,697,646 - 146,724,124 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01157,463,014 - 157,494,134 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1157,468,626 - 157,494,008 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01163,711,941 - 163,738,274 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41149,474,824 - 149,501,334 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1144,872,077 - 144,903,151 (-)NCBICelera
Cytogenetic Map1q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:25931508  


Genomics

Comparative Map Data
Pcf11
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81156,109,724 - 156,136,950 (-)NCBIGRCr8
mRatBN7.21146,694,045 - 146,724,030 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1146,697,646 - 146,724,124 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01157,463,014 - 157,494,134 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1157,468,626 - 157,494,008 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01163,711,941 - 163,738,274 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41149,474,824 - 149,501,334 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1144,872,077 - 144,903,151 (-)NCBICelera
Cytogenetic Map1q32NCBI
PCF11
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381183,157,131 - 83,187,451 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1183,156,988 - 83,187,451 (+)EnsemblGRCh38hg38GRCh38
GRCh371182,868,173 - 82,898,493 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361182,545,785 - 82,574,484 (+)NCBINCBI36Build 36hg18NCBI36
Celera1180,177,801 - 80,206,501 (+)NCBICelera
Cytogenetic Map11q14.1NCBI
HuRef1179,165,274 - 79,194,104 (+)NCBIHuRef
CHM1_11182,752,298 - 82,780,979 (+)NCBICHM1_1
T2T-CHM13v2.01183,093,603 - 83,123,924 (+)NCBIT2T-CHM13v2.0
Pcf11
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39792,292,666 - 92,319,284 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl792,292,751 - 92,319,142 (-)EnsemblGRCm39 Ensembl
GRCm38792,643,458 - 92,670,080 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl792,643,543 - 92,669,934 (-)EnsemblGRCm38mm10GRCm38
MGSCv37799,792,222 - 99,818,422 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36792,519,447 - 92,545,076 (-)NCBIMGSCv36mm8
Celera789,935,174 - 89,961,010 (-)NCBICelera
Cytogenetic Map7E1NCBI
cM Map751.56NCBI
Pcf11
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554149,402,818 - 9,428,501 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554149,401,919 - 9,428,501 (-)NCBIChiLan1.0ChiLan1.0
PCF11
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2984,087,368 - 84,116,105 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11185,138,157 - 85,166,869 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01178,220,710 - 78,249,276 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11181,832,382 - 81,860,964 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1181,832,383 - 81,860,958 (+)Ensemblpanpan1.1panPan2
PCF11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12116,006,022 - 16,028,369 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2116,006,749 - 16,028,021 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2115,881,943 - 15,906,444 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02116,192,096 - 16,216,602 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2116,192,111 - 16,216,463 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12115,967,967 - 15,992,475 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02116,047,442 - 16,071,996 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02116,117,486 - 16,142,039 (-)NCBIUU_Cfam_GSD_1.0
Pcf11
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494769,708,045 - 69,734,089 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493649811,307,568 - 11,337,596 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493649811,307,644 - 11,333,692 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCF11
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl917,297,861 - 17,324,710 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1917,297,867 - 17,324,721 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2919,211,766 - 19,238,640 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PCF11
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1174,350,577 - 74,379,284 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl174,350,609 - 74,378,374 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604351,319,177 - 51,347,963 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pcf11
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248456,712,408 - 6,736,773 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248456,712,401 - 6,736,778 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pcf11
60 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:42
Count of miRNA genes:40
Interacting mature miRNAs:42
Transcripts:ENSRNOT00000013552
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)187580395150700247Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642644214537671Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
2303591Gluco41Glucose level QTL 412blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1102168504147168504Rat
61370Mcs3Mammary carcinoma susceptibility QTL 32.15mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1102268556147268556Rat
1354623Rf46Renal function QTL 463.8blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)1102813953151162766Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
9590300Scort16Serum corticosterone level QTL 164.390.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1103111621148111621Rat
8694370Bw154Body weight QTL 1548.910.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)1103111621148111621Rat
631496Bp97Blood pressure QTL 973.08arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1106047847151047847Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
2313060Bss71Bone structure and strength QTL 712.60.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1118944747163944747Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
1598850Bp297Blood pressure QTL 2972.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1598866Bp287Blood pressure QTL 2875.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
61442Strs1Sensitivity to stroke QTL 17.4cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)1121767634166767634Rat
2293140Bp313Blood pressure QTL 313arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121833674166833674Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501168883176Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1126540680171540680Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
631202Gluco13Glucose level QTL 130.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1131763437159756369Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
631206Niddm40Non-insulin dependent diabetes mellitus QTL 40blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1136745990163747690Rat
71118Thym1Thymus enlargement QTL 110.170.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
724550Thym3Thymus enlargement QTL 37.820.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1136830018181830018Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144017057197814409Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383668Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
634315Niddm45Non-insulin dependent diabetes mellitus QTL 457.16blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1144267916172949660Rat
61379Bp44Blood pressure QTL 4419.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144267916174133260Rat

Markers in Region
RH132167  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21146,697,575 - 146,697,767 (+)MAPPERmRatBN7.2
Rnor_6.01157,468,083 - 157,468,274NCBIRnor6.0
Rnor_5.01163,712,231 - 163,712,422UniSTSRnor5.0
RGSC_v3.41149,475,358 - 149,475,549UniSTSRGSC3.4
Celera1144,877,146 - 144,877,337UniSTS
RH 3.4 Map11132.9UniSTS
Cytogenetic Map1q32UniSTS
D19321  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21146,697,931 - 146,698,032 (+)MAPPERmRatBN7.2
Rnor_6.01157,468,439 - 157,468,539NCBIRnor6.0
Rnor_5.01163,712,587 - 163,712,687UniSTSRnor5.0
RGSC_v3.41149,475,714 - 149,475,814UniSTSRGSC3.4
Celera1144,877,502 - 144,877,602UniSTS
Cytogenetic Map1q32UniSTS


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 36 46 30 19 30 8 8 74 35 41 11 8
Low 7 11 11 11 3
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000013552   ⟹   ENSRNOP00000013552
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1146,698,132 - 146,724,124 (-)Ensembl
Rnor_6.0 Ensembl1157,468,626 - 157,494,008 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094339   ⟹   ENSRNOP00000085261
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1146,697,646 - 146,724,124 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104348   ⟹   ENSRNOP00000092470
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1146,697,646 - 146,724,124 (-)Ensembl
RefSeq Acc Id: NM_001427432   ⟹   NP_001414361
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81156,109,724 - 156,135,966 (-)NCBI
RefSeq Acc Id: XM_008759657   ⟹   XP_008757879
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81156,109,724 - 156,136,950 (-)NCBI
mRatBN7.21146,694,045 - 146,724,030 (-)NCBI
Rnor_6.01157,463,014 - 157,494,134 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001414361 (Get FASTA)   NCBI Sequence Viewer  
  XP_008757879 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM18519 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013552.6
  ENSRNOP00000085261.1
  ENSRNOP00000092470
  ENSRNOP00000092470.1
RefSeq Acc Id: XP_008757879   ⟸   XM_008759657
- Peptide Label: isoform X1
- UniProtKB: A0A8I6GJT1 (UniProtKB/TrEMBL),   D3ZY40 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013552   ⟸   ENSRNOT00000013552
RefSeq Acc Id: ENSRNOP00000085261   ⟸   ENSRNOT00000094339
RefSeq Acc Id: ENSRNOP00000092470   ⟸   ENSRNOT00000104348
RefSeq Acc Id: NP_001414361   ⟸   NM_001427432
- UniProtKB: D3ZY40 (UniProtKB/TrEMBL)
Protein Domains
CID

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZY40-F1-model_v2 AlphaFold D3ZY40 1-1551 view protein structure

Transcriptome

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

Promoters
RGD ID:13690201
Promoter ID:EPDNEW_R720
Type:initiation region
Name:Pcf11_1
Description:PCF11 cleavage and polyadenylation factor subunit
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_6.01157,494,096 - 157,494,156EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563397 AgrOrtholog
BioCyc Gene G2FUF-58502 BioCyc
Ensembl Genes ENSRNOG00000009891 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013552.8 UniProtKB/TrEMBL
  ENSRNOT00000094339.1 UniProtKB/TrEMBL
  ENSRNOT00000104348.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.90 UniProtKB/TrEMBL
InterPro CID_Pcf11 UniProtKB/TrEMBL
  ENTH_VHS UniProtKB/TrEMBL
  PCF11-like UniProtKB/TrEMBL
  PCF11_charged UniProtKB/TrEMBL
  Pcf11_Clp1-ID UniProtKB/TrEMBL
  PCF11_helical UniProtKB/TrEMBL
  PCF11_RFEG_rpt UniProtKB/TrEMBL
  RNA_polymerase_II_lsu_CTD UniProtKB/TrEMBL
NCBI Gene 361605 ENTREZGENE
PANTHER PRE-MRNA CLEAVAGE COMPLEX 2 PROTEIN PCF11 UniProtKB/TrEMBL
  PTHR15921 UniProtKB/TrEMBL
Pfam CFIA_Pcf11 UniProtKB/TrEMBL
  DUF618 UniProtKB/TrEMBL
  PCF11_charged UniProtKB/TrEMBL
  Pcf11_helical UniProtKB/TrEMBL
  PCF11_RFEG_rpt UniProtKB/TrEMBL
PhenoGen Pcf11 PhenoGen
PROSITE CID UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009891 RatGTEx
SMART RPR UniProtKB/TrEMBL
Superfamily-SCOP ENTH_VHS UniProtKB/TrEMBL
UniProt A0A8I6A2W5_RAT UniProtKB/TrEMBL
  A0A8I6GJT1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZY40 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-07-23 Pcf11  PCF11 cleavage and polyadenylation factor subunit  Pcf11  PCF11, cleavage and polyadenylation factor subunit, homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-24 Pcf11  PCF11, cleavage and polyadenylation factor subunit, homolog (S. cerevisiae)  Pcf11  cleavage and polyadenylation factor subunit homolog (S. cerevisiae)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Pcf11  cleavage and polyadenylation factor subunit homolog (S. cerevisiae)   Pcf11_predicted  cleavage and polyadenylation factor subunit homolog (S. cerevisiae) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Pcf11_predicted  cleavage and polyadenylation factor subunit homolog (S. cerevisiae) (predicted)  RGD1563397_predicted  similar to mKIAA0824 protein (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1563397_predicted  similar to mKIAA0824 protein (predicted)  LOC361605  similar to mKIAA0824 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC361605  similar to mKIAA0824 protein      Symbol and Name status set to provisional 70820 PROVISIONAL