Pabpc1 (poly(A) binding protein, cytoplasmic 1) - Rat Genome Database

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Gene: Pabpc1 (poly(A) binding protein, cytoplasmic 1) Rattus norvegicus
Analyze
Symbol: Pabpc1
Name: poly(A) binding protein, cytoplasmic 1
RGD ID: 619838
Description: Enables mRNA binding activity. Predicted to be involved in positive regulation of viral genome replication and regulation of gene expression. Located in dendrite. Part of protein-containing complex. Orthologous to several human genes including PABPC1 (poly(A) binding protein cytoplasmic 1); PARTICIPATES IN microRNA pathway; translation initiation pathway; mRNA decay pathway; INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC91496; Pabp; PABP 1; PABP-1; Pabp1; poly(A)-binding protein 1; polyadenylate-binding protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Pabpc1-ps1  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8769,662,513 - 69,674,806 (-)NCBIGRCr8
mRatBN7.2767,777,438 - 67,789,731 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl767,777,381 - 67,789,744 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx769,665,830 - 69,678,123 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0771,868,434 - 71,880,727 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0771,736,315 - 71,748,608 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0775,409,581 - 75,421,874 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl775,409,581 - 75,422,268 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0775,557,634 - 75,569,927 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4772,116,140 - 72,128,433 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1772,136,510 - 72,149,407 (-)NCBI
Celera764,857,404 - 64,869,695 (-)NCBICelera
Cytogenetic Map7q22NCBI
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
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP,ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
2-bromohexadecanoic acid  (ISO)
3,4-methylenedioxymethamphetamine  (EXP,ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-vinylcyclohexene dioxide  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP,ISO)
aconitine  (EXP)
acrolein  (ISO)
alpha-pinene  (ISO)
amino acid  (ISO)
aristolochic acid A  (EXP,ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chlordecone  (ISO)
chlormequat chloride  (EXP)
chloropicrin  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clofibric acid  (EXP)
cocaine  (EXP)
Cuprizon  (EXP)
cyclosporin A  (ISO)
dexamethasone  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
disodium selenite  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
etoposide  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
glyphosate  (ISO)
indometacin  (ISO)
isoflavones  (EXP)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
menadione  (ISO)
methidathion  (ISO)
methimazole  (EXP)
methoxychlor  (ISO)
N-nitrosodiethylamine  (EXP)
ozone  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
rotenone  (EXP)
senecionine  (ISO)
silicon dioxide  (ISO)
sirolimus  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tetrachloromethane  (ISO)
torin 1  (ISO)
triadimefon  (EXP)
triphenyl phosphate  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
mRNA 3'-UTR binding  (IBA,ISO)
mRNA binding  (IDA,ISO)
poly(A) binding  (IBA,ISO,ISS)
poly(U) RNA binding  (IBA,ISO)
protein binding  (IPI,ISO)
RNA binding  (IEA,ISO)

Molecular Pathway 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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. The mechanism of eukaryotic translation initiation: new insights and challenges. Hinnebusch AG and Lorsch JR, Cold Spring Harb Perspect Biol. 2012 Oct 1;4(10). pii: a011544. doi: 10.1101/cshperspect.a011544.
4. The scanning mechanism of eukaryotic translation initiation. Hinnebusch AG Annu Rev Biochem. 2014;83:779-812. doi: 10.1146/annurev-biochem-060713-035802. Epub 2014 Jan 29.
5. Molecular composition of staufen2-containing ribonucleoproteins in embryonic rat brain. Maher-Laporte M, etal., PLoS One. 2010 Jun 28;5(6):e11350. doi: 10.1371/journal.pone.0011350.
6. Vasopressin mRNA localization in nerve cells: characterization of cis-acting elements and trans-acting factors. Mohr E, etal., Proc Natl Acad Sci U S A 2001 Jun 19;98(13):7072-9.
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. Insulin receptor substrate-1 (IRS-1) forms a ribonucleoprotein complex associated with polysomes. Ozoe A, etal., FEBS Lett. 2013 Aug 2;587(15):2319-24. doi: 10.1016/j.febslet.2013.05.066. Epub 2013 Jun 13.
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Comprehensive gene review and curation RGD comprehensive gene curation
14. RNA decay machines: deadenylation by the Ccr4-not and Pan2-Pan3 complexes. Wahle E and Winkler GS, Biochim Biophys Acta. 2013 Jun-Jul;1829(6-7):561-70. doi: 10.1016/j.bbagrm.2013.01.003. Epub 2013 Jan 19.
Additional References at PubMed
PMID:11991638   PMID:12477932   PMID:15121898   PMID:15303970   PMID:15489334   PMID:15663938   PMID:16126846   PMID:16452087   PMID:16554297   PMID:16778019   PMID:16804161   PMID:17289661  
PMID:18447585   PMID:18625844   PMID:19716330   PMID:19946888   PMID:21423176   PMID:21700703   PMID:21883093   PMID:21940797   PMID:21984414   PMID:22658674   PMID:22681889   PMID:22871113  
PMID:23533145   PMID:24625528   PMID:25225333   PMID:26627310   PMID:26735137   PMID:28252024   PMID:28259758   PMID:28733330   PMID:28755400   PMID:29476059   PMID:30053369   PMID:31743794  
PMID:32357304   PMID:32360748   PMID:35352799  


Genomics

Comparative Map Data
Pabpc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8769,662,513 - 69,674,806 (-)NCBIGRCr8
mRatBN7.2767,777,438 - 67,789,731 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl767,777,381 - 67,789,744 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx769,665,830 - 69,678,123 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0771,868,434 - 71,880,727 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0771,736,315 - 71,748,608 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0775,409,581 - 75,421,874 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl775,409,581 - 75,422,268 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0775,557,634 - 75,569,927 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4772,116,140 - 72,128,433 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1772,136,510 - 72,149,407 (-)NCBI
Celera764,857,404 - 64,869,695 (-)NCBICelera
Cytogenetic Map7q22NCBI
PABPC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh388100,702,916 - 100,722,088 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl8100,685,816 - 100,722,809 (-)EnsemblGRCh38hg38GRCh38
GRCh378101,715,144 - 101,734,316 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368101,784,320 - 101,803,491 (-)NCBINCBI36Build 36hg18NCBI36
Build 348101,784,319 - 101,803,491NCBI
Celera897,900,528 - 97,919,706 (-)NCBICelera
Cytogenetic Map8q22.3NCBI
HuRef896,913,861 - 96,933,038 (-)NCBIHuRef
CHM1_18101,755,929 - 101,775,103 (-)NCBICHM1_1
T2T-CHM13v2.08101,828,977 - 101,848,145 (-)NCBIT2T-CHM13v2.0
Pabpc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391536,595,902 - 36,609,825 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1536,595,905 - 36,609,912 (-)EnsemblGRCm39 Ensembl
GRCm381536,595,658 - 36,609,581 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1536,595,661 - 36,609,668 (-)EnsemblGRCm38mm10GRCm38
MGSCv371536,525,413 - 36,538,728 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361536,540,252 - 36,553,551 (-)NCBIMGSCv36mm8
Celera1537,216,852 - 37,230,173 (-)NCBICelera
Cytogenetic Map15B3.1NCBI
cM Map1514.51NCBI
Pabpc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541715,868,934 - 15,885,247 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541715,872,906 - 15,885,246 (-)NCBIChiLan1.0ChiLan1.0
PABPC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27118,056,637 - 118,076,633 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1893,592,669 - 93,612,674 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0897,346,433 - 97,365,628 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1899,518,347 - 99,534,284 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl899,518,347 - 99,537,614 (-)Ensemblpanpan1.1panPan2
PABPC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1132,563,698 - 2,580,610 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl132,564,065 - 2,580,368 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha132,560,662 - 2,577,627 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0132,717,070 - 2,734,072 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl132,687,294 - 2,837,742 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1132,561,235 - 2,578,211 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0132,672,912 - 2,689,894 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0132,690,335 - 2,707,304 (-)NCBIUU_Cfam_GSD_1.0
Pabpc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530335,202,647 - 35,244,212 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647042,628,667 - 42,643,347 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647042,628,890 - 42,670,311 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PABPC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl436,209,164 - 36,228,073 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1436,137,644 - 36,228,075 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2439,133,409 - 39,152,542 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PABPC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1895,560,551 - 95,578,627 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl895,561,930 - 95,578,633 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603945,104,972 - 45,123,828 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pabpc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247637,550,307 - 7,567,918 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247637,552,541 - 7,568,047 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Pabpc1
36 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:36
Count of miRNA genes:29
Interacting mature miRNAs:34
Transcripts:ENSRNOT00000012775
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
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
2293667Bss42Bone structure and strength QTL 427.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)74765143992651439Rat
10053722Scort27Serum corticosterone level QTL 272.410.0083blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)74322875088228750Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)72409960669099606Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72475184169751841Rat
2317035Aia16Adjuvant induced arthritis QTL 162.71joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)759238038104238038Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72940968384928080Rat
2293678Bss24Bone structure and strength QTL 246.710.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)74765143992651439Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)743747012108555253Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)73796056982960569Rat
2293685Bmd21Bone mineral density QTL 214.20.0003femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)74765143992651439Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73111283276112832Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
634326Hc3Hypercalciuria QTL 32.1urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)74278731487787314Rat
2293696Bmd32Bone mineral density QTL 325.10.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)74765143992651439Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)73429328279293282Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)753612714103945643Rat
1559283Emca4Estrogen-induced mammary cancer QTL 43.7mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)762004452101773158Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
738030Anxrr8Anxiety related response QTL 84.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)74659007091590070Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)743747099102228765Rat
631534Lnnr1Liver neoplastic nodule remodeling QTL 13.850.001liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)73429328279293282Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
2293707Bss32Bone structure and strength QTL 327.640.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)74765143992651439Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
2293644Bmd29Bone mineral density QTL 295.40.0001femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)74765143992651439Rat
2300178Bmd54Bone mineral density QTL 545.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)74765143992651439Rat
1298528Bp169Blood pressure QTL 1690.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)761074194106074194Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)74486753389867533Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)71965431784928080Rat
1576303Ept7Estrogen-induced pituitary tumorigenesis QTL 73.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)762004452101773158Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)72940968374409683Rat

Markers in Region
Pabpc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
RGSC_v3.41832,757,052 - 32,758,183UniSTSRGSC3.4
RGSC_v3.41832,757,257 - 32,757,659UniSTSRGSC3.4
RGSC_v3.4772,119,416 - 72,121,074UniSTSRGSC3.4
Celera1831,285,479 - 31,285,881UniSTS
Celera764,860,680 - 64,862,338UniSTS
Celera1831,285,274 - 31,286,405UniSTS
AW535519  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2767,777,647 - 67,777,848 (+)MAPPERmRatBN7.2
Rnor_6.0775,409,791 - 75,409,991NCBIRnor6.0
Rnor_5.0775,557,844 - 75,558,044UniSTSRnor5.0
RGSC_v3.4772,116,350 - 72,116,550UniSTSRGSC3.4
Celera764,857,614 - 64,857,814UniSTS
RH 3.4 Map7638.4UniSTS
Cytogenetic Map7q22UniSTS
Pabpc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0775,560,910 - 75,562,568UniSTSRnor5.0
Rnor_5.01832,642,609 - 32,643,011UniSTSRnor5.0
RGSC_v3.41832,757,257 - 32,757,659UniSTSRGSC3.4
RGSC_v3.4772,119,416 - 72,121,074UniSTSRGSC3.4
Celera1831,285,479 - 31,285,881UniSTS
Celera764,860,680 - 64,862,338UniSTS
Cytogenetic Map7q22UniSTS
Cytogenetic Map18p11UniSTS
Pabpc1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.01832,642,404 - 32,643,535UniSTSRnor5.0
RGSC_v3.41832,757,052 - 32,758,183UniSTSRGSC3.4
Celera1831,285,274 - 31,286,405UniSTS
Cytogenetic Map7q22UniSTS
Cytogenetic Map18p11UniSTS


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 12 12 3 12 2 4
Medium 3 43 45 29 16 29 7 10 72 35 37 11 7
Low 1 1 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_134353 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AJ298278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC083176 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DQ729922 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225136 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225513 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225570 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227116 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227205 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227215 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227779 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227801 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227809 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228174 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230410 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231126 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231168 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231712 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231724 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232194 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232243 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232597 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233029 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233189 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233208 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233212 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233332 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233392 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233735 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233754 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234055 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234227 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234338 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234422 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234731 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ235211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ235339 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000012775   ⟹   ENSRNOP00000012775
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl767,777,575 - 67,789,744 (-)Ensembl
Rnor_6.0 Ensembl775,409,581 - 75,421,874 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000080218   ⟹   ENSRNOP00000071159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl767,777,575 - 67,789,744 (-)Ensembl
Rnor_6.0 Ensembl775,411,311 - 75,422,268 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104653   ⟹   ENSRNOP00000080094
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl767,777,575 - 67,789,744 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116510   ⟹   ENSRNOP00000095971
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl767,777,381 - 67,789,744 (-)Ensembl
RefSeq Acc Id: NM_134353   ⟹   NP_599180
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8769,662,513 - 69,674,806 (-)NCBI
mRatBN7.2767,777,438 - 67,789,731 (-)NCBI
Rnor_6.0775,409,581 - 75,421,874 (-)NCBI
Rnor_5.0775,557,634 - 75,569,927 (-)NCBI
RGSC_v3.4772,116,140 - 72,128,433 (-)RGD
Celera764,857,404 - 64,869,695 (-)RGD
Sequence:
RefSeq Acc Id: NP_599180   ⟸   NM_134353
- UniProtKB: Q9EPH8 (UniProtKB/Swiss-Prot),   A6HR30 (UniProtKB/TrEMBL),   A0A0G2JZS2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071159   ⟸   ENSRNOT00000080218
RefSeq Acc Id: ENSRNOP00000012775   ⟸   ENSRNOT00000012775
RefSeq Acc Id: ENSRNOP00000080094   ⟸   ENSRNOT00000104653
RefSeq Acc Id: ENSRNOP00000095971   ⟸   ENSRNOT00000116510
Protein Domains
PABC   RRM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EPH8-F1-model_v2 AlphaFold Q9EPH8 1-636 view protein structure

Transcriptome

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

Promoters
RGD ID:13695293
Promoter ID:EPDNEW_R5818
Type:multiple initiation site
Name:Pabpc1_1
Description:poly binding protein, cytoplasmic 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_6.0775,422,139 - 75,422,199EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619838 AgrOrtholog
BioCyc Gene G2FUF-33640 BioCyc
Ensembl Genes ENSRNOG00000008639 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055023445 UniProtKB/Swiss-Prot
  ENSRNOG00060008612 UniProtKB/Swiss-Prot
  ENSRNOG00065003631 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000012775 ENTREZGENE
  ENSRNOT00000012775.8 UniProtKB/Swiss-Prot
  ENSRNOT00000080218.2 UniProtKB/TrEMBL
  ENSRNOT00000104653.1 UniProtKB/TrEMBL
  ENSRNOT00000116510.1 UniProtKB/TrEMBL
  ENSRNOT00055040315 UniProtKB/Swiss-Prot
  ENSRNOT00060014378 UniProtKB/Swiss-Prot
  ENSRNOT00065005267 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  c-terminal domain of poly(a) binding protein UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7097075 IMAGE-MGC_LOAD
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PABP-dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PABP_1234 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PABP_HYD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PABP_RRM1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RBD_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM2_I_PABPs UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_dom_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:171350 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:91496 IMAGE-MGC_LOAD
NCBI Gene 171350 ENTREZGENE
PANTHER POLYADENYLATE-BINDING PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RNA BINDING PROTEIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PABP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pabpc1 PhenoGen
PROSITE PABC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000008639 RatGTEx
  ENSRNOG00055023445 RatGTEx
  ENSRNOG00060008612 RatGTEx
  ENSRNOG00065003631 RatGTEx
SMART PolyA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RRM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF63570 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JZS2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6B3K1_RAT UniProtKB/TrEMBL
  A0A8I6G441_RAT UniProtKB/TrEMBL
  A6HR30 ENTREZGENE, UniProtKB/TrEMBL
  PABP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-01-20 Pabpc1  poly(A) binding protein, cytoplasmic 1      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Pabpc1  poly(A) binding protein, cytoplasmic 1      Symbol and Name status set to provisional 70820 PROVISIONAL