Prpf39 (pre-mRNA processing factor 39) - Rat Genome Database

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Gene: Prpf39 (pre-mRNA processing factor 39) Rattus norvegicus
Analyze
Symbol: Prpf39
Name: pre-mRNA processing factor 39
RGD ID: 1308702
Description: Predicted to contribute to pre-mRNA 5'-splice site binding activity. Predicted to be involved in mRNA 5'-splice site recognition. Predicted to be located in nucleus. Predicted to be part of U1 snRNP; U2-type prespliceosome; and commitment complex. Orthologous to human PRPF39 (pre-mRNA processing factor 39); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC314171; pre-mRNA-processing factor 39; PRP39 pre-mRNA processing factor 39 homolog; PRP39 pre-mRNA processing factor 39 homolog (S. cerevisiae); PRP39 pre-mRNA processing factor 39 homolog (yeast)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8688,825,227 - 88,851,342 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl688,825,243 - 88,851,341 (+)EnsemblGRCr8
mRatBN7.2683,088,981 - 83,113,826 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl683,088,986 - 83,113,825 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx683,448,548 - 83,473,385 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0683,747,910 - 83,772,747 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0683,189,628 - 83,214,483 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0686,785,793 - 86,810,806 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl686,785,771 - 86,810,316 (+)Ensemblrn6Rnor6.0
Rnor_5.0696,274,772 - 96,299,877 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4686,385,975 - 86,412,072 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera681,656,963 - 81,681,773 (+)NCBICelera
RGSC_v3.1686,395,686 - 86,413,568 (+)NCBI
Cytogenetic Map6q24NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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:8889548   PMID:12477932  


Genomics

Comparative Map Data
Prpf39
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8688,825,227 - 88,851,342 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl688,825,243 - 88,851,341 (+)EnsemblGRCr8
mRatBN7.2683,088,981 - 83,113,826 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl683,088,986 - 83,113,825 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx683,448,548 - 83,473,385 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0683,747,910 - 83,772,747 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0683,189,628 - 83,214,483 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0686,785,793 - 86,810,806 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl686,785,771 - 86,810,316 (+)Ensemblrn6Rnor6.0
Rnor_5.0696,274,772 - 96,299,877 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4686,385,975 - 86,412,072 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera681,656,963 - 81,681,773 (+)NCBICelera
RGSC_v3.1686,395,686 - 86,413,568 (+)NCBI
Cytogenetic Map6q24NCBI
PRPF39
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381445,084,116 - 45,116,282 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1445,084,107 - 45,116,282 (+)Ensemblhg38GRCh38
GRCh371445,553,319 - 45,585,485 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361444,623,052 - 44,654,554 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341444,623,073 - 44,654,552NCBI
Celera1425,414,556 - 25,446,057 (+)NCBICelera
Cytogenetic Map14q21.2NCBI
HuRef1425,663,974 - 25,695,536 (+)NCBIHuRef
CHM1_11445,491,468 - 45,522,951 (+)NCBICHM1_1
T2T-CHM13v2.01439,276,128 - 39,308,293 (+)NCBIT2T-CHM13v2.0
Prpf39
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391265,083,094 - 65,110,160 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1265,083,107 - 65,110,160 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381265,036,334 - 65,063,386 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1265,036,333 - 65,063,386 (+)Ensemblmm10GRCm38
MGSCv371266,137,321 - 66,164,373 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361265,972,667 - 65,981,991 (+)NCBIMGSCv36mm8
Celera1266,166,020 - 66,193,073 (+)NCBICelera
Cytogenetic Map12C1NCBI
cM Map1227.21NCBI
Prpf39
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540916,824,638 - 16,845,778 (-)Ensembl
ChiLan1.0NW_00495540916,824,638 - 16,845,778 (-)NCBIChiLan1.0ChiLan1.0
PRPF39
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21546,256,678 - 46,288,112 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11445,473,188 - 45,504,622 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01425,700,636 - 25,732,012 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11444,027,452 - 44,059,865 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1444,027,452 - 44,059,865 (+)EnsemblpanPan2panpan1.1
PRPF39
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1822,510,816 - 22,549,481 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl822,511,329 - 22,549,226 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha822,329,071 - 22,367,476 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0822,670,271 - 22,708,705 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl822,670,294 - 22,708,701 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1822,332,687 - 22,371,098 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0822,399,191 - 22,437,601 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0822,735,047 - 22,773,473 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Prpf39
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864054,494,288 - 54,526,534 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365834,161,945 - 4,194,699 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365834,162,381 - 4,194,615 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRPF39
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1175,285,270 - 175,317,298 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11175,285,219 - 175,317,245 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21195,153,563 - 195,185,567 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRPF39
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12422,204,010 - 22,235,740 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2422,216,451 - 22,239,051 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666116306,474 - 338,254 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prpf39
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473123,409,610 - 23,450,772 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473123,409,610 - 23,450,286 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Prpf39
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1778,740,898 - 78,765,710 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Prpf39
94 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:210
Count of miRNA genes:89
Interacting mature miRNAs:105
Transcripts:ENSRNOT00000065090, ENSRNOT00000066702
Prediction methods:Microtar, 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
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)64451097489510974Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)671278722116278722Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)664367996109367996Rat
2293088Iddm28Insulin dependent diabetes mellitus QTL 285.21blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)668767270135411972Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)688019181136741135Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)66345744194939581Rat
4889933Bss88Bone structure and strength QTL 883.8tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)65368492198684921Rat
724524Uae2Urinary albumin excretion QTL 22.70.0005urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)679198463144254945Rat
737827Hcar11Hepatocarcinoma resistance QTL 114.4liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)646050607116278722Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)64604735391047353Rat
1331743Uae28Urinary albumin excretion QTL 284.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)64515378690153786Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)620859430113082285Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
2293837Kiddil1Kidney dilation QTL 13.7kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)686867923110125012Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64451097489510974Rat
61329Eae9Experimental allergic encephalomyelitis QTL 93.7body mass (VT:0001259)change in body weight (CMO:0002045)684490437129490437Rat
2293842Kiddil3Kidney dilation QTL 34.3kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)686867923110125012Rat
4889848Pur25Proteinuria QTL 25140.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)66303731995934232Rat
5684963Bss99Bone structure and strength QTL 993.1tibia area (VT:1000281)tibia area measurement (CMO:0001382)65368492198684921Rat
5684992Bmd83Bone mineral density QTL 824.8tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)65368492198684921Rat
1576302Schws4Schwannoma susceptibility QTL 40.0078nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)678204640123204640Rat
1300075Glom7Glomerulus QTL 75.60.0000002kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)676937178121937178Rat
1331789Rf37Renal function QTL 373.224kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)686494122112380234Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)66345744194939581Rat

Markers in Region
D6Got105  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2683,099,031 - 83,099,256 (+)MAPPERmRatBN7.2
Rnor_6.0686,796,011 - 86,796,235NCBIRnor6.0
Rnor_5.0696,284,990 - 96,285,214UniSTSRnor5.0
RGSC_v3.4686,396,005 - 86,396,229UniSTSRGSC3.4
RGSC_v3.4686,396,004 - 86,396,229RGDRGSC3.4
Celera681,666,988 - 81,667,212UniSTS
RGSC_v3.1686,399,461 - 86,399,685RGD
RH 3.4 Map6549.19UniSTS
RH 3.4 Map6549.19RGD
RH 2.0 Map6802.0RGD
Cytogenetic Map6q24UniSTS
RH131276  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2683,114,912 - 83,115,062 (+)MAPPERmRatBN7.2
Rnor_6.0686,811,893 - 86,812,042NCBIRnor6.0
Rnor_5.0696,300,872 - 96,301,021UniSTSRnor5.0
RGSC_v3.4686,411,887 - 86,412,036UniSTSRGSC3.4
Celera681,682,860 - 81,683,009UniSTS
RH 3.4 Map6564.8UniSTS
Cytogenetic Map6q24UniSTS
RH137341  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2683,113,518 - 83,113,706 (+)MAPPERmRatBN7.2
Rnor_6.0686,810,499 - 86,810,686NCBIRnor6.0
Rnor_5.0696,299,478 - 96,299,665UniSTSRnor5.0
RGSC_v3.4686,410,493 - 86,410,680UniSTSRGSC3.4
Celera681,681,466 - 81,681,653UniSTS
RH 3.4 Map6564.7UniSTS
Cytogenetic Map6q24UniSTS


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
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001108026 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003750171 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_003754180 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225783 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225784 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225785 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225786 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225787 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006240140 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006240141 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006240142 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006240143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006240144 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039112247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063261917 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC166472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BQ782205 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000006 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000066702   ⟹   ENSRNOP00000061487
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl688,825,243 - 88,851,340 (+)Ensembl
mRatBN7.2 Ensembl683,088,986 - 83,113,825 (+)Ensembl
Rnor_6.0 Ensembl686,785,771 - 86,810,316 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000110268   ⟹   ENSRNOP00000077104
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl688,832,246 - 88,851,341 (+)Ensembl
mRatBN7.2 Ensembl683,088,991 - 83,113,821 (+)Ensembl
RefSeq Acc Id: NM_001108026   ⟹   NP_001101496
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8688,825,240 - 88,850,078 (+)NCBI
mRatBN7.2683,088,986 - 83,113,826 (+)NCBI
RefSeq Acc Id: XM_006240140   ⟹   XP_006240202
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8688,831,786 - 88,851,342 (+)NCBI
mRatBN7.2683,089,012 - 83,113,826 (+)NCBI
Rnor_6.0686,785,800 - 86,810,806 (+)NCBI
Rnor_5.0696,274,772 - 96,299,877 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006240141   ⟹   XP_006240203
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8688,831,786 - 88,851,342 (+)NCBI
mRatBN7.2683,089,012 - 83,113,826 (+)NCBI
Rnor_6.0686,785,800 - 86,810,806 (+)NCBI
Rnor_5.0696,274,772 - 96,299,877 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006240143   ⟹   XP_006240205
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8688,832,244 - 88,851,342 (+)NCBI
mRatBN7.2683,095,992 - 83,113,826 (+)NCBI
Rnor_6.0686,793,012 - 86,810,806 (+)NCBI
Rnor_5.0696,274,772 - 96,299,877 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006240144   ⟹   XP_006240206
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8688,832,246 - 88,851,342 (+)NCBI
mRatBN7.2683,095,990 - 83,113,826 (+)NCBI
Rnor_6.0686,793,007 - 86,810,806 (+)NCBI
Rnor_5.0696,274,772 - 96,299,877 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039112247   ⟹   XP_038968175
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8688,825,227 - 88,844,019 (+)NCBI
mRatBN7.2683,088,981 - 83,107,673 (+)NCBI
RefSeq Acc Id: XM_063261917   ⟹   XP_063117987
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8688,825,227 - 88,844,019 (+)NCBI
RefSeq Acc Id: XP_006240202   ⟸   XM_006240140
- Peptide Label: isoform X1
- UniProtKB: A0A8I5YBM8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240203   ⟸   XM_006240141
- Peptide Label: isoform X1
- UniProtKB: A0A8I5YBM8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240206   ⟸   XM_006240144
- Peptide Label: isoform X1
- UniProtKB: A0A8I5YBM8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006240205   ⟸   XM_006240143
- Peptide Label: isoform X1
- UniProtKB: A0A8I5YBM8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000061487   ⟸   ENSRNOT00000066702
RefSeq Acc Id: XP_038968175   ⟸   XM_039112247
- Peptide Label: isoform X2
RefSeq Acc Id: NP_001101496   ⟸   NM_001108026
- UniProtKB: D4A5S9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000077104   ⟸   ENSRNOT00000110268
RefSeq Acc Id: XP_063117987   ⟸   XM_063261917
- Peptide Label: isoform X2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5S9-F1-model_v2 AlphaFold D4A5S9 1-664 view protein structure

Transcriptome

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

Promoters
RGD ID:13694627
Promoter ID:EPDNEW_R5149
Type:multiple initiation site
Name:Prpf39_1
Description:pre-mRNA processing factor 39
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_6.0686,785,782 - 86,785,842EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308702 AgrOrtholog
BioCyc Gene G2FUF-37331 BioCyc
Ensembl Genes ENSRNOG00000004521 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000066702 ENTREZGENE
  ENSRNOT00000066702.6 UniProtKB/TrEMBL
  ENSRNOT00000110268 ENTREZGENE
  ENSRNOT00000110268.2 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
InterPro HAT UniProtKB/TrEMBL
  TPR-like_helical UniProtKB/TrEMBL
NCBI Gene 314171 ENTREZGENE
PANTHER PRE-MRNA PROCESSING PROTEIN PRP39-RELATED UniProtKB/TrEMBL
  PRE-MRNA-PROCESSING FACTOR 39 UniProtKB/TrEMBL
Pfam HAT_PRP39_C UniProtKB/TrEMBL
  HAT_PRP39_N UniProtKB/TrEMBL
PhenoGen Prpf39 PhenoGen
RatGTEx ENSRNOG00000004521 RatGTEx
SMART HAT UniProtKB/TrEMBL
Superfamily-SCOP SSF48452 UniProtKB/TrEMBL
UniProt A0A8I5YBM8 ENTREZGENE, UniProtKB/TrEMBL
  D4A5S9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-19 Prpf39  pre-mRNA processing factor 39  Prpf39  PRP39 pre-mRNA processing factor 39 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-24 Prpf39  PRP39 pre-mRNA processing factor 39 homolog (S. cerevisiae)  Prpf39  PRP39 pre-mRNA processing factor 39 homolog (yeast)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Prpf39  PRP39 pre-mRNA processing factor 39 homolog (yeast)   Prpf39_predicted  PRP39 pre-mRNA processing factor 39 homolog (yeast) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Prpf39_predicted  PRP39 pre-mRNA processing factor 39 homolog (yeast) (predicted)      Symbol and Name status set to approved 70820 APPROVED