Pclaf (PCNA clamp associated factor) - Rat Genome Database

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Gene: Pclaf (PCNA clamp associated factor) Rattus norvegicus
Analyze
Symbol: Pclaf
Name: PCNA clamp associated factor
RGD ID: 1303041
Description: Predicted to enable chromatin binding activity and molecular adaptor activity. Predicted to be involved in several processes, including DNA metabolic process; centrosome cycle; and response to UV. Predicted to be located in centrosome and perinuclear region of cytoplasm. Predicted to be active in nucleus. Orthologous to human PCLAF (PCNA clamp associated factor); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: HCV NS5A-transactivated protein 9 homolog; NS5A (hepatitis C virus) transactivated protein 9; Ns5atp9; p15PAF; Paf; PAF15; PCNA-associated factor; PCNA-associated factor of 15 kDa
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8875,311,028 - 75,328,108 (+)NCBIGRCr8
mRatBN7.2866,420,606 - 66,432,994 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl866,420,587 - 66,432,994 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl8108,560,971 - 108,561,319 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx871,934,016 - 71,945,871 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0870,207,082 - 70,218,937 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0868,076,256 - 68,088,146 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0871,514,281 - 71,526,182 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl871,514,281 - 71,526,182 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0871,186,712 - 71,198,728 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4870,159,283 - 70,172,116 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1870,178,336 - 70,191,170 (+)NCBI
Celera865,810,620 - 65,822,516 (+)NCBICelera
Cytogenetic Map8q24NCBI
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
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acrylamide  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
arsenite(3-)  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-naphthoflavone  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
capsaicin  (EXP)
carbamazepine  (ISO)
cefaloridine  (EXP)
chloropicrin  (ISO)
cisplatin  (EXP,ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
DDE  (ISO)
dexamethasone  (ISO)
diallyl trisulfide  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP)
dioxygen  (EXP)
dorsomorphin  (ISO)
Enterolactone  (ISO)
erythromycin estolate  (EXP)
folic acid  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
furan  (EXP)
genistein  (ISO)
glycidol  (EXP)
indometacin  (ISO)
irinotecan  (ISO)
ivermectin  (ISO)
ketamine  (EXP)
leflunomide  (EXP)
lidocaine  (EXP)
lucanthone  (ISO)
maneb  (ISO)
menadione  (ISO)
methamphetamine  (EXP,ISO)
methotrexate  (ISO)
methylmercury chloride  (ISO)
miconazole  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodiethylamine  (EXP)
naphthalene  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP)
NS-398  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
palbociclib  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
phenethyl isothiocyanate  (ISO)
phenformin  (EXP)
PhIP  (EXP)
piperonyl butoxide  (EXP)
piroxicam  (ISO)
progesterone  (ISO)
propanal  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
rifampicin  (ISO)
rotenone  (EXP)
SB 431542  (ISO)
SCH 23390  (EXP)
senecionine  (EXP)
Senkirkine  (EXP)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sulforaphane  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
titanium dioxide  (EXP)
topotecan  (EXP)
trichloroethene  (EXP)
triclosan  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
trovafloxacin  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
zaragozic acid A  (EXP,ISO)
zearalenone  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
centrosome  (ISO)
nucleus  (IBA,IEA,ISO,ISS)
perinuclear region of cytoplasm  (IEA,ISO,ISS)

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21628590   PMID:21673012   PMID:23000965  


Genomics

Comparative Map Data
Pclaf
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8875,311,028 - 75,328,108 (+)NCBIGRCr8
mRatBN7.2866,420,606 - 66,432,994 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl866,420,587 - 66,432,994 (+)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl8108,560,971 - 108,561,319 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx871,934,016 - 71,945,871 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0870,207,082 - 70,218,937 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0868,076,256 - 68,088,146 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0871,514,281 - 71,526,182 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl871,514,281 - 71,526,182 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0871,186,712 - 71,198,728 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4870,159,283 - 70,172,116 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1870,178,336 - 70,191,170 (+)NCBI
Celera865,810,620 - 65,822,516 (+)NCBICelera
Cytogenetic Map8q24NCBI
PCLAF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381564,364,304 - 64,387,687 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1564,364,304 - 64,387,687 (-)EnsemblGRCh38hg38GRCh38
GRCh371564,656,503 - 64,679,886 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361562,444,246 - 62,460,755 (-)NCBINCBI36Build 36hg18NCBI36
Build 341562,444,265 - 62,460,682NCBI
Celera1541,535,211 - 41,551,717 (-)NCBICelera
Cytogenetic Map15q22.31NCBI
HuRef1541,481,234 - 41,497,634 (-)NCBIHuRef
CHM1_11564,776,716 - 64,793,092 (-)NCBICHM1_1
T2T-CHM13v2.01562,173,847 - 62,197,108 (-)NCBIT2T-CHM13v2.0
Pclaf
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39965,797,605 - 65,810,833 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl965,797,519 - 65,810,548 (+)EnsemblGRCm39 Ensembl
GRCm38965,890,323 - 65,903,551 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl965,890,237 - 65,903,266 (+)EnsemblGRCm38mm10GRCm38
MGSCv37965,738,130 - 65,751,358 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36965,688,329 - 65,701,557 (+)NCBIMGSCv36mm8
Celera963,128,991 - 63,142,582 (+)NCBICelera
Cytogenetic Map9CNCBI
cM Map935.58NCBI
Pclaf
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545011,072,786 - 11,082,687 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545011,072,778 - 11,082,687 (+)NCBIChiLan1.0ChiLan1.0
PCLAF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21653,617,214 - 53,633,472 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11557,788,668 - 57,803,694 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01543,311,115 - 43,331,979 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11561,602,830 - 61,617,303 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1561,602,830 - 61,617,303 (-)Ensemblpanpan1.1panPan2
PCLAF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13028,832,388 - 28,846,824 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3028,751,144 - 28,765,515 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03029,008,166 - 29,022,548 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3029,011,296 - 29,022,547 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13028,942,687 - 28,957,061 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03029,004,629 - 29,018,932 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03029,244,130 - 29,258,484 (-)NCBIUU_Cfam_GSD_1.0
Pclaf
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640106,949,408 - 106,959,958 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647124,797,393 - 24,808,227 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647124,797,291 - 24,812,196 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PCLAF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1107,659,509 - 107,670,954 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11107,659,509 - 107,669,477 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21118,495,370 - 118,506,630 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PCLAF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12619,140,901 - 19,155,488 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2619,140,843 - 19,155,730 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048122,242,653 - 122,259,245 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pclaf
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247818,195,451 - 8,206,187 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247818,195,256 - 8,207,357 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:392
Count of miRNA genes:221
Interacting mature miRNAs:245
Transcripts:ENSRNOT00000022256
Prediction methods:Microtar, Miranda, 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
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83975280384752803Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)839106363103375781Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)85076395195763951Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83910625884106258Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)85158969999045312Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)839106363103375781Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)84447792689477926Rat
4889938Bss89Bone structure and strength QTL 893.8tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)85899169791341052Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)839106258103375958Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83910625891341052Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)861019838121662124Rat
8662823Vetf5Vascular elastic tissue fragility QTL 51.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)863404444108404444Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)835464071107982864Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)84754141992541419Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83910625884106258Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)83154366176543661Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625884106258Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)850763951107970527Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84444783789447837Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84961020494610204Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)835464071107982864Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)855428333127966348Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)839106363114525825Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)84924517894245178Rat
724540Uae8Urinary albumin excretion QTL 85urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)839106258103375958Rat
10402857Bp380Blood pressure QTL 3800.95arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)862848139107848139Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)835464071107982864Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)84924517894245178Rat
5684973Bss100Bone structure and strength QTL 1004.7tibia area (VT:1000281)tibia area measurement (CMO:0001382)85899169791341052Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)84447504389475043Rat
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83910625891341052Rat
12879878Bw183Body weight QTL 1830.001body mass (VT:0001259)body weight (CMO:0000012)862848139107848139Rat
1300177Cm2Cardiac mass QTL 23.65heart mass (VT:0007028)heart weight (CMO:0000017)863141536109261840Rat
1549908Neudeg1Neurodegradation QTL 15.50nervous system integrity trait (VT:0010566)logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)858337123103337123Rat
12879879Cm99Cardiac mass QTL 990.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)862848139107848139Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83910625891341052Rat
1331804Cm30Cardiac mass QTL 303.77443heart mass (VT:0007028)heart wet weight (CMO:0000069)862970527107970527Rat
12879880Cm100Cardiac mass QTL 1000.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)862848139107848139Rat
12879881Cm101Cardiac mass QTL 1010.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)862848139107848139Rat
12879882Am8Aortic mass QTL 80.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)862848139107848139Rat
12879883Kidm65Kidney mass QTL 650.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)862848139107848139Rat
71120Niddm21Non-insulin dependent diabetes mellitus QTL 213.73blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)866992095111992095Rat
1358912Bw51Body weight QTL 512.95body mass (VT:0001259)body weight (CMO:0000012)860248093105248093Rat
2313086Bss60Bone structure and strength QTL 604.10.0001tibia length (VT:0004357)tibia length (CMO:0000450)85899169791341052Rat
2293697Bmd39Bone mineral density QTL 39femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)862848139107848139Rat
1331837Bw23Body weight QTL 234.190.00007body mass (VT:0001259)body weight (CMO:0000012)855428416107963099Rat
1331838Niddm61Non-insulin dependent diabetes mellitus QTL 613.530.0004blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)862963099107963099Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)870041301121080908Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)868690349119799881Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83910625891341052Rat
2301402Bp316Blood pressure QTL 3160.005arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)862848139107848139Rat
631664Hcar3Hepatocarcinoma resistance QTL 32.90.0005liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)862982864107982864Rat

Markers in Region
RH129305  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2866,432,753 - 66,432,937 (+)MAPPERmRatBN7.2
Rnor_6.0871,526,368 - 71,526,551NCBIRnor6.0
Rnor_5.0871,198,914 - 71,199,097UniSTSRnor5.0
RGSC_v3.4870,172,302 - 70,172,485UniSTSRGSC3.4
Celera865,822,702 - 65,822,885UniSTS
RH 3.4 Map8837.0UniSTS
Cytogenetic Map8q24UniSTS
BF399284  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2866,428,349 - 66,428,502 (+)MAPPERmRatBN7.2
Rnor_6.0871,521,963 - 71,522,115NCBIRnor6.0
Rnor_5.0871,194,509 - 71,194,661UniSTSRnor5.0
RGSC_v3.4870,167,897 - 70,168,049UniSTSRGSC3.4
Celera865,818,297 - 65,818,449UniSTS
RH 3.4 Map8839.4UniSTS
Cytogenetic Map8q24UniSTS
RH136891  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2866,432,740 - 66,432,938 (+)MAPPERmRatBN7.2
Rnor_6.0871,526,355 - 71,526,552NCBIRnor6.0
Rnor_5.0871,198,901 - 71,199,098UniSTSRnor5.0
RGSC_v3.4870,172,289 - 70,172,486UniSTSRGSC3.4
Celera865,822,689 - 65,822,886UniSTS
RH 3.4 Map8839.9UniSTS
Cytogenetic Map8q24UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000022256   ⟹   ENSRNOP00000022256
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8108,560,971 - 108,561,319 (+)Ensembl
Rnor_6.0 Ensembl871,514,281 - 71,526,182 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000112544   ⟹   ENSRNOP00000091479
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl866,420,587 - 66,432,994 (+)Ensembl
RefSeq Acc Id: NM_201418   ⟹   NP_958821
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8875,315,717 - 75,328,108 (+)NCBI
mRatBN7.2866,420,606 - 66,432,994 (+)NCBI
Rnor_6.0871,514,281 - 71,526,182 (+)NCBI
Rnor_5.0871,186,712 - 71,198,728 (+)NCBI
RGSC_v3.4870,159,283 - 70,172,116 (+)RGD
Celera865,810,620 - 65,822,516 (+)RGD
Sequence:
RefSeq Acc Id: XM_063265161   ⟹   XP_063121231
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8875,311,276 - 75,328,108 (+)NCBI
RefSeq Acc Id: XM_063265162   ⟹   XP_063121232
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8875,311,028 - 75,328,108 (+)NCBI
RefSeq Acc Id: NP_958821   ⟸   NM_201418
- UniProtKB: Q6RIA2 (UniProtKB/Swiss-Prot),   A6J5G6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000022256   ⟸   ENSRNOT00000022256
Ensembl Acc Id: ENSRNOP00000091479   ⟸   ENSRNOT00000112544
RefSeq Acc Id: XP_063121232   ⟸   XM_063265162
- Peptide Label: isoform X1
- UniProtKB: Q6RIA2 (UniProtKB/Swiss-Prot),   A6J5G6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063121231   ⟸   XM_063265161
- Peptide Label: isoform X1
- UniProtKB: Q6RIA2 (UniProtKB/Swiss-Prot),   A6J5G6 (UniProtKB/TrEMBL)
Protein Domains
PCNA-associated factor histone-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6RIA2-F1-model_v2 AlphaFold Q6RIA2 1-110 view protein structure

Transcriptome

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

Promoters
RGD ID:13696082
Promoter ID:EPDNEW_R6605
Type:initiation region
Name:Pclaf_1
Description:PCNA clamp associated factor
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_6.0871,514,214 - 71,514,274EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1303041 AgrOrtholog
BioCyc Gene G2FUF-30039 BioCyc
Ensembl Genes ENSRNOG00000016561 Ensembl
  ENSRNOG00000067723 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00055025156 UniProtKB/Swiss-Prot
  ENSRNOG00060017450 UniProtKB/Swiss-Prot
  ENSRNOG00065006530 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000112544.1 UniProtKB/TrEMBL
  ENSRNOT00055043351 UniProtKB/Swiss-Prot
  ENSRNOT00060029825 UniProtKB/Swiss-Prot
  ENSRNOT00065010075 UniProtKB/Swiss-Prot
InterPro PCNA-AF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PCNA-AF_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:300795 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 300795 ENTREZGENE
PANTHER PCNA-ASSOCIATED FACTOR UniProtKB/Swiss-Prot
  PCNA-ASSOCIATED FACTOR UniProtKB/TrEMBL
  PCNA-ASSOCIATED FACTOR UniProtKB/TrEMBL
  PTHR15679 UniProtKB/Swiss-Prot
Pfam PAF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pclaf PhenoGen
RatGTEx ENSRNOG00000016561 RatGTEx
  ENSRNOG00000067723 RatGTEx
  ENSRNOG00055025156 RatGTEx
  ENSRNOG00060017450 RatGTEx
  ENSRNOG00065006530 RatGTEx
UniProt A0A8I6ADS8_RAT UniProtKB/TrEMBL
  A6J5G6 ENTREZGENE, UniProtKB/TrEMBL
  PAF15_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-02-01 Pclaf  PCNA clamp associated factor  Ns5atp9  NS5A (hepatitis C virus) transactivated protein 9  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Ns5atp9  NS5A (hepatitis C virus) transactivated protein 9    Ns5atp9 protein  Name updated 1299863 APPROVED
2005-09-30 Ns5atp9        Symbol and Name status set to provisional 70820 PROVISIONAL