Papolb (poly(A) polymerase beta) - Rat Genome Database

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Gene: Papolb (poly(A) polymerase beta) Rattus norvegicus
Analyze
Symbol: Papolb
Name: poly(A) polymerase beta
RGD ID: 1310946
Description: Predicted to be located in cytoplasm and nucleus. Orthologous to human PAPOLB (poly(A) polymerase beta); PARTICIPATES IN 3'-end pre-mRNA processing pathway; mRNA decay pathway; INTERACTS WITH 17beta-estradiol; bisphenol A; Cuprizon.
Type: protein-coding (Ensembl: pseudogene)
RefSeq Status: VALIDATED
Previously known as: LOC304300; poly (A) polymerase beta (testis specific)
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
GRCr81217,157,757 - 17,160,103 (+)NCBIGRCr8
mRatBN7.21212,044,275 - 12,046,621 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1212,044,480 - 12,046,656 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1212,846,725 - 12,849,071 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01213,469,956 - 13,472,302 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01212,501,082 - 12,503,428 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01214,112,426 - 14,114,772 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01216,140,417 - 16,142,763 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41212,440,762 - 12,443,108 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11212,470,689 - 12,473,030 (+)NCBI
Celera1213,826,942 - 13,829,288 (+)NCBICelera
Cytogenetic Map12p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (ISO)
nucleus  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:11150526   PMID:12477932   PMID:18325338  


Genomics

Comparative Map Data
Papolb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81217,157,757 - 17,160,103 (+)NCBIGRCr8
mRatBN7.21212,044,275 - 12,046,621 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1212,044,480 - 12,046,656 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1212,846,725 - 12,849,071 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01213,469,956 - 13,472,302 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01212,501,082 - 12,503,428 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01214,112,426 - 14,114,772 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01216,140,417 - 16,142,763 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41212,440,762 - 12,443,108 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11212,470,689 - 12,473,030 (+)NCBI
Celera1213,826,942 - 13,829,288 (+)NCBICelera
Cytogenetic Map12p11NCBI
PAPOLB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3874,857,738 - 4,862,030 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl74,857,738 - 4,862,030 (-)EnsemblGRCh38hg38GRCh38
GRCh3774,897,369 - 4,901,661 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3674,863,895 - 4,868,151 (-)NCBINCBI36Build 36hg18NCBI36
Build 3474,670,611 - 4,674,866NCBI
Celera74,856,457 - 4,860,713 (-)NCBICelera
Cytogenetic Map7p22.1NCBI
HuRef74,812,979 - 4,817,235 (-)NCBIHuRef
CHM1_174,897,092 - 4,901,348 (-)NCBICHM1_1
T2T-CHM13v2.074,974,940 - 4,979,232 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v274,943,724 - 4,947,980 (-)NCBI
Papolb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395142,513,495 - 142,515,831 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5142,511,593 - 142,515,831 (-)EnsemblGRCm39 Ensembl
GRCm385142,527,740 - 142,530,076 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5142,525,838 - 142,530,076 (-)EnsemblGRCm38mm10GRCm38
MGSCv375143,003,694 - 143,006,030 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365142,780,214 - 142,782,550 (-)NCBIMGSCv36mm8
Celera5139,582,766 - 139,585,102 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map581.53NCBI
Papolb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546010,872,735 - 10,946,235 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546010,941,776 - 10,946,235 (+)NCBIChiLan1.0ChiLan1.0
PAPOLB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v269,821,428 - 9,828,341 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1758,146,132 - 58,153,045 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v075,110,442 - 5,114,734 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.175,150,895 - 5,155,214 (-)NCBIpanpan1.1PanPan1.1panPan2
PAPOLB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1612,792,167 - 12,795,557 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha614,263,022 - 14,265,654 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0612,928,469 - 12,931,099 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl612,928,651 - 12,930,777 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1612,739,190 - 12,741,822 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0612,672,206 - 12,674,838 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0612,948,336 - 12,950,968 (+)NCBIUU_Cfam_GSD_1.0
Papolb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344141,070,786 - 141,074,814 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367651,061,846 - 1,066,002 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PAPOLB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.133,696,416 - 3,700,986 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.234,347,054 - 4,351,384 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PAPOLB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12816,788,585 - 16,790,623 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660905,129,059 - 5,133,138 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Papolb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474028,451,467 - 28,457,301 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12119611090Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1600391Edcs2Endometrial carcinoma susceptibility QTL23.50.01uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)12683319017870186Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat
2293086Iddm30Insulin dependent diabetes mellitus QTL 303.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12844949028302290Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)12852542328064601Rat
1331739Hrtrt14Heart rate QTL 143.56232heart pumping trait (VT:2000009)heart rate (CMO:0000002)12931821612829686Rat
1300157Rf21Renal function QTL 214.4renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)12931821632103380Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)12960327746669029Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121047413746669029Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121047413746669029Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121107382524234895Rat
1331755Bp219Blood pressure QTL 2193.041arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382528064557Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121107382545055165Rat

Markers in Region
BF409203  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21212,046,254 - 12,046,454 (+)MAPPERmRatBN7.2
Rnor_6.01214,114,406 - 14,114,605NCBIRnor6.0
Rnor_5.01216,142,397 - 16,142,596UniSTSRnor5.0
RGSC_v3.41212,442,742 - 12,442,941UniSTSRGSC3.4
Celera1213,828,922 - 13,829,121UniSTS
RH 3.4 Map12162.9UniSTS
Cytogenetic Map12p11UniSTS
Papolb  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21212,044,779 - 12,045,100 (+)MAPPERmRatBN7.2
Rnor_6.01214,112,931 - 14,113,251NCBIRnor6.0
Rnor_5.01216,140,922 - 16,141,242UniSTSRnor5.0
RGSC_v3.41212,441,267 - 12,441,587UniSTSRGSC3.4
Celera1213,827,447 - 13,827,767UniSTS
Cytogenetic Map12p11UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000112726
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1212,044,480 - 12,046,656 (+)Ensembl
RefSeq Acc Id: NM_001012020   ⟹   NP_001012020
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81217,157,757 - 17,160,103 (+)NCBI
mRatBN7.21212,044,275 - 12,046,621 (+)NCBI
Rnor_6.01214,112,426 - 14,114,772 (+)NCBI
Rnor_5.01216,140,417 - 16,142,763 (+)NCBI
RGSC_v3.41212,440,762 - 12,443,108 (+)RGD
Celera1213,826,942 - 13,829,288 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001012020 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79046 (Get FASTA)   NCBI Sequence Viewer  
  EDL89711 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001012020   ⟸   NM_001012020
- UniProtKB: Q6AYH1 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
Poly(A) polymerase central   Poly(A) polymerase nucleotidyltransferase   Poly(A) polymerase RNA-binding

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:1310946 AgrOrtholog
BioCyc Gene G2FUF-19969 BioCyc
Ensembl Genes ENSRNOG00000069441 Ensembl
Gene3D-CATH 1.10.1410.10 UniProtKB/TrEMBL
  3.30.460.10 UniProtKB/TrEMBL
  Poly(A) polymerase predicted RNA binding domain UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7115077 IMAGE-MGC_LOAD
InterPro NT_sf UniProtKB/TrEMBL
  NuclTrfase_I_C UniProtKB/TrEMBL
  PolA_pol_cen_dom UniProtKB/TrEMBL
  PolA_pol_NTPase UniProtKB/TrEMBL
  PolA_pol_RNA-bd_dom UniProtKB/TrEMBL
  PolyA_polymerase UniProtKB/TrEMBL
KEGG Report rno:304300 UniProtKB/TrEMBL
MGC_CLONE MGC:93982 IMAGE-MGC_LOAD
NCBI Gene 304300 ENTREZGENE
PANTHER POLY A POLYMERASE UniProtKB/TrEMBL
  POLY(A) POLYMERASE BETA UniProtKB/TrEMBL
Pfam PAP_central UniProtKB/TrEMBL
  PAP_NTPase UniProtKB/TrEMBL
  PAP_RNA-bind UniProtKB/TrEMBL
PhenoGen Papolb PhenoGen
PIRSF PolyA_polymerase UniProtKB/TrEMBL
RatGTEx ENSRNOG00000069441 RatGTEx
Superfamily-SCOP PAP/OAS1 substrate-binding domain UniProtKB/TrEMBL
  PAP_C UniProtKB/TrEMBL
  SSF81301 UniProtKB/TrEMBL
UniProt Q6AYH1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-20 Papolb  poly(A) polymerase beta  Papolb  poly (A) polymerase beta (testis specific)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Papolb  poly (A) polymerase beta (testis specific)  Papolb_predicted  poly (A) polymerase beta (testis specific) (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Papolb_predicted  poly (A) polymerase beta (testis specific) (predicted)      Symbol and Name status set to approved 70820 APPROVED