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
Black Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Pabpc1-ps1  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8769,662,513 - 69,674,806 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl769,663,068 - 69,675,050 (-)EnsemblGRCr8
mRatBN7.2767,777,438 - 67,789,731 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl767,777,381 - 67,789,744 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx769,665,830 - 69,678,123 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0771,868,434 - 71,880,727 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0771,736,315 - 71,748,608 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0775,409,581 - 75,421,874 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl775,409,581 - 75,422,268 (-)Ensemblrn6Rnor6.0
Rnor_5.0775,557,634 - 75,569,927 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4772,116,140 - 72,128,433 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera764,857,404 - 64,869,695 (-)NCBICelera
RGSC_v3.1772,136,510 - 72,149,407 (-)NCBI
Cytogenetic Map7q22NCBI
JBrowse:




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)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
Butylbenzyl phthalate  (EXP,ISO)
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)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
dicyclanil  (ISO)
disodium selenite  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
etoposide  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
glyphosate  (ISO)
GSK-J4  (ISO)
indometacin  (ISO)
isoflavones  (EXP)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
menadione  (ISO)
methidathion  (ISO)
methimazole  (EXP)
methoxychlor  (ISO)
N-nitrosodiethylamine  (EXP)
Nivalenol  (ISO)
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)
titanium dioxide  (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)
nucleic acid binding  (IEA)
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:28131823   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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl769,663,068 - 69,675,050 (-)EnsemblGRCr8
mRatBN7.2767,777,438 - 67,789,731 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl767,777,381 - 67,789,744 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx769,665,830 - 69,678,123 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0771,868,434 - 71,880,727 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0771,736,315 - 71,748,608 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0775,409,581 - 75,421,874 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl775,409,581 - 75,422,268 (-)Ensemblrn6Rnor6.0
Rnor_5.0775,557,634 - 75,569,927 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4772,116,140 - 72,128,433 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera764,857,404 - 64,869,695 (-)NCBICelera
RGSC_v3.1772,136,510 - 72,149,407 (-)NCBI
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 (-)Ensemblhg38GRCh38
GRCh378101,715,144 - 101,734,316 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 368101,784,320 - 101,803,491 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm381536,595,658 - 36,609,581 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1536,595,661 - 36,609,668 (-)Ensemblmm10GRCm38
MGSCv371536,525,413 - 36,538,728 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (-)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha132,560,662 - 2,577,627 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0132,717,070 - 2,734,072 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247637,552,541 - 7,568,047 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Pabpc1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11210,123,454 - 210,137,250 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pabpc1
54 total Variants
miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10053722Scort27Serum corticosterone level QTL 272.410.0083blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)74511390390113903Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)72663805771638057Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)75170064396700643Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)72417947886817926Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)731770293110435881Rat
1298525Cm1Cardiac mass QTL 12.7heart mass (VT:0007028)heart wet weight (CMO:0000069)756625161101625161Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)73984590284845902Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)746307490127866166Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73299870277998702Rat
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)763889858108889858Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)755498584105834451Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)73617876481178764Rat
738030Anxrr8Anxiety related response QTL 84.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)74847504993475049Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)71011291699900612Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
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)73617876481178764Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)740540077123682549Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)749682832115766396Rat
1298528Bp169Blood pressure QTL 1690.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)762963207107963207Rat
1576303Ept7Estrogen-induced pituitary tumorigenesis QTL 73.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)763889858108889858Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)72154197786817926Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)749682832115766396Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)749682832115766396Rat
2303582Gluco53Glucose level QTL 533blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)74860308793603087Rat
61439Cia8Collagen induced arthritis QTL 85.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)72718291472182914Rat

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
GRCr8769,662,722 - 69,662,923 (+)Marker Load Pipeline
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

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
23 13 84 213 91 90 59 159 59 6 492 286 22 191 116 124 31 34 34

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

Ensembl Acc Id: ENSRNOT00000012775   ⟹   ENSRNOP00000012775
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl769,663,068 - 69,675,050 (-)Ensembl
mRatBN7.2 Ensembl767,777,575 - 67,789,744 (-)Ensembl
Rnor_6.0 Ensembl775,409,581 - 75,421,874 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000080218   ⟹   ENSRNOP00000071159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl769,663,068 - 69,675,050 (-)Ensembl
mRatBN7.2 Ensembl767,777,575 - 67,789,744 (-)Ensembl
Rnor_6.0 Ensembl775,411,311 - 75,422,268 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000104653   ⟹   ENSRNOP00000080094
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl769,663,068 - 69,675,050 (-)Ensembl
mRatBN7.2 Ensembl767,777,575 - 67,789,744 (-)Ensembl
Ensembl 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:
Protein Sequences
Protein RefSeqs NP_599180 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH83176 (Get FASTA)   NCBI Sequence Viewer  
  CAC21554 (Get FASTA)   NCBI Sequence Viewer  
  EDM16392 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000012775
  ENSRNOP00000012775.5
GenBank Protein Q9EPH8 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_599180   ⟸   NM_134353
- UniProtKB: Q9EPH8 (UniProtKB/Swiss-Prot),   A6HR30 (UniProtKB/TrEMBL),   A0A0G2JZS2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071159   ⟸   ENSRNOT00000080218
Ensembl Acc Id: ENSRNOP00000012775   ⟸   ENSRNOT00000012775
Ensembl Acc Id: ENSRNOP00000080094   ⟸   ENSRNOT00000104653
Ensembl 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
Ensembl Transcript ENSRNOT00000012775 ENTREZGENE
  ENSRNOT00000012775.8 UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.330 UniProtKB/Swiss-Prot
  c-terminal domain of poly(a) binding protein UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7097075 IMAGE-MGC_LOAD
InterPro Nucleotide-bd_a/b_plait_sf UniProtKB/Swiss-Prot
  PABP-dom UniProtKB/Swiss-Prot
  PABP_1234 UniProtKB/Swiss-Prot
  PABP_HYD UniProtKB/Swiss-Prot
  PABP_RRM1 UniProtKB/Swiss-Prot
  RBD_domain_sf UniProtKB/Swiss-Prot
  RRM2_I_PABPs UniProtKB/Swiss-Prot
  RRM_dom UniProtKB/Swiss-Prot
  RRM_dom_euk UniProtKB/Swiss-Prot
KEGG Report rno:171350 UniProtKB/Swiss-Prot
MGC_CLONE MGC:91496 IMAGE-MGC_LOAD
NCBI Gene 171350 ENTREZGENE
PANTHER RNA BINDING PROTEIN UniProtKB/Swiss-Prot
Pfam PABP UniProtKB/Swiss-Prot
  RRM_1 UniProtKB/Swiss-Prot
PhenoGen Pabpc1 PhenoGen
PROSITE PABC UniProtKB/Swiss-Prot
  RRM UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000008639 RatGTEx
SMART PolyA UniProtKB/Swiss-Prot
  RRM UniProtKB/Swiss-Prot
  RRM_1 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF54928 UniProtKB/Swiss-Prot
  SSF63570 UniProtKB/Swiss-Prot
UniProt A0A0G2JZS2 ENTREZGENE, 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