Prpf40b (pre-mRNA processing factor 40 homolog B) - Rat Genome Database

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Gene: Prpf40b (pre-mRNA processing factor 40 homolog B) Rattus norvegicus
Analyze
Symbol: Prpf40b
Name: pre-mRNA processing factor 40 homolog B
RGD ID: 1565411
Description: Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be part of U1 snRNP and U2-type prespliceosome. Orthologous to human PRPF40B (pre-mRNA processing factor 40 homolog B); INTERACTS WITH 4,4'-sulfonyldiphenol; bisphenol A; bisphenol F.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC363000; LOC103692979; LOC363000; pre-mRNA-processing factor 40 homolog B; PRP40 homolog, pre-mRNA processing factor B; PRP40 pre-mRNA processing factor 40 homolog B; PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae); RGD1565411; similar to 2610317D23Rik protein; uncharacterized LOC103692979; uncharacterized protein LOC363000
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87132,271,469 - 132,332,913 (+)NCBIGRCr8
mRatBN7.27130,392,611 - 130,454,053 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7130,432,112 - 130,454,052 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7132,244,910 - 132,259,145 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07134,470,488 - 134,484,723 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07134,383,004 - 134,397,239 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07140,958,952 - 140,981,588 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7140,967,282 - 140,981,583 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47138,031,952 - 138,064,371 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7126,922,583 - 126,936,827 (+)NCBICelera
Cytogenetic Map7q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Biological Process

Cellular Component

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Prpf40b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87132,271,469 - 132,332,913 (+)NCBIGRCr8
mRatBN7.27130,392,611 - 130,454,053 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7130,432,112 - 130,454,052 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7132,244,910 - 132,259,145 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07134,470,488 - 134,484,723 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07134,383,004 - 134,397,239 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07140,958,952 - 140,981,588 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7140,967,282 - 140,981,583 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47138,031,952 - 138,064,371 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera7126,922,583 - 126,936,827 (+)NCBICelera
Cytogenetic Map7q36NCBI
PRPF40B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381249,622,646 - 49,644,665 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1249,568,218 - 49,644,666 (+)EnsemblGRCh38hg38GRCh38
GRCh371250,017,344 - 50,038,448 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361248,303,670 - 48,324,716 (+)NCBINCBI36Build 36hg18NCBI36
Celera1248,813,077 - 48,834,123 (+)NCBICelera
Cytogenetic Map12q13.12NCBI
HuRef1247,049,273 - 47,070,021 (+)NCBIHuRef
CHM1_11249,983,486 - 50,004,741 (+)NCBICHM1_1
T2T-CHM13v2.01249,585,655 - 49,607,675 (+)NCBIT2T-CHM13v2.0
Prpf40b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391599,192,957 - 99,214,899 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1599,192,968 - 99,214,899 (+)EnsemblGRCm39 Ensembl
GRCm381599,295,076 - 99,317,018 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1599,295,087 - 99,317,018 (+)EnsemblGRCm38mm10GRCm38
MGSCv371599,125,840 - 99,147,438 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361599,123,443 - 99,145,041 (+)NCBIMGSCv36mm8
Celera15101,451,974 - 101,473,568 (+)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1556.13NCBI
Prpf40b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955547231,875 - 252,922 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955547232,286 - 252,922 (+)NCBIChiLan1.0ChiLan1.0
PRPF40B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21044,540,346 - 44,562,767 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11244,537,107 - 44,558,346 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01239,106,862 - 39,128,125 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11239,998,264 - 40,020,381 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1239,998,264 - 40,019,481 (-)Ensemblpanpan1.1panPan2
PRPF40B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1275,017,861 - 5,038,033 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl275,018,060 - 5,038,119 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2741,219,770 - 41,240,081 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0275,067,497 - 5,088,016 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl275,067,502 - 5,087,997 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1275,033,023 - 5,053,533 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0275,022,852 - 5,043,502 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02741,613,748 - 41,634,267 (+)NCBIUU_Cfam_GSD_1.0
Prpf40b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494565,770,777 - 65,877,593 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365127,342,355 - 7,363,101 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365127,342,370 - 7,394,064 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRPF40B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl515,570,474 - 15,592,383 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1515,570,140 - 15,593,140 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2515,991,586 - 16,007,851 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRPF40B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11145,868,789 - 45,890,035 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1145,875,889 - 45,889,562 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666037200,234,919 - 200,256,174 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prpf40b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248162,616,362 - 2,673,059 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248162,616,614 - 2,673,330 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Prpf40b
266 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:405
Count of miRNA genes:230
Interacting mature miRNAs:272
Transcripts:ENSRNOT00000067294
Prediction methods:Microtar, Miranda, Pita, Pita,Targetscan, 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
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7111075573134976056Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7111182207135012528Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7112308254133492884Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7112729683133492707Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7119513385135012528Rat

Markers in Region
RH141727  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,453,778 - 130,453,996 (+)MAPPERmRatBN7.2
Rnor_6.07140,981,310 - 140,981,527NCBIRnor6.0
Rnor_5.0X115,484,755 - 115,484,972UniSTSRnor5.0
RGSC_v3.47138,064,098 - 138,064,315UniSTSRGSC3.4
Celera7126,936,554 - 126,936,771UniSTS
RH 3.4 Map71077.3UniSTS
Cytogenetic Map7q36UniSTS
BE109790  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,444,863 - 130,445,054 (+)MAPPERmRatBN7.2
Rnor_6.07140,972,338 - 140,972,528NCBIRnor6.0
Rnor_5.0X115,476,692 - 115,476,882UniSTSRnor5.0
Celera7126,927,639 - 126,927,829UniSTS
RH 3.4 Map71076.1UniSTS
Cytogenetic Map7q36UniSTS
RH141606  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,454,317 - 130,454,514 (+)MAPPERmRatBN7.2
Rnor_6.07140,981,849 - 140,982,045NCBIRnor6.0
Rnor_5.0X115,485,294 - 115,485,490UniSTSRnor5.0
Celera7126,937,093 - 126,937,289UniSTS
RH 3.4 Map71050.1UniSTS
Cytogenetic Map7q36UniSTS
MARC_34442-34443:1063639913:2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27130,451,557 - 130,452,166 (+)MAPPERmRatBN7.2
Rnor_6.07140,979,089 - 140,979,697NCBIRnor6.0
Rnor_5.0X115,482,534 - 115,483,142UniSTSRnor5.0
Celera7126,934,333 - 126,934,941UniSTS
Cytogenetic Map7q36UniSTS


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
Medium 1 32 17 7 9 7 3 74 32 41 11
Low 2 11 40 34 10 34 8 8 3 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001134583 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257364 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257365 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257366 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257369 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257370 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257371 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006257372 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765767 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765768 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079641 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079642 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079643 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263955 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263957 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263959 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063263960 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_010053022 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide CH474035 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000091306   ⟹   ENSRNOP00000071841
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7130,439,808 - 130,454,052 (+)Ensembl
Rnor_6.0 Ensembl7140,967,282 - 140,981,583 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113677   ⟹   ENSRNOP00000080666
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7130,432,112 - 130,454,052 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113722   ⟹   ENSRNOP00000094837
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7130,433,857 - 130,454,052 (+)Ensembl
RefSeq Acc Id: NM_001134583   ⟹   NP_001128055
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,318,668 - 132,332,912 (+)NCBI
mRatBN7.27130,439,808 - 130,454,052 (+)NCBI
Rnor_6.07140,967,282 - 140,981,583 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
RGSC_v3.47138,031,952 - 138,064,371 (+)RGD
Celera7126,922,583 - 126,936,827 (+)RGD
Sequence:
RefSeq Acc Id: XM_006257364   ⟹   XP_006257426
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,428 - 132,332,913 (+)NCBI
mRatBN7.27130,433,758 - 130,454,053 (+)NCBI
Rnor_6.07140,965,995 - 140,981,588 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006257365   ⟹   XP_006257427
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,428 - 132,332,913 (+)NCBI
mRatBN7.27130,433,758 - 130,454,053 (+)NCBI
Rnor_6.07140,965,996 - 140,981,588 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006257366   ⟹   XP_006257428
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,429 - 132,332,913 (+)NCBI
mRatBN7.27130,433,759 - 130,454,053 (+)NCBI
Rnor_6.07140,965,996 - 140,981,588 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006257367   ⟹   XP_006257429
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,426 - 132,332,913 (+)NCBI
mRatBN7.27130,433,756 - 130,454,053 (+)NCBI
Rnor_6.07140,965,994 - 140,981,588 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006257369   ⟹   XP_006257431
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,310,955 - 132,332,913 (+)NCBI
mRatBN7.27130,432,098 - 130,454,053 (+)NCBI
Rnor_6.07140,958,952 - 140,981,588 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006257370   ⟹   XP_006257432
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,166 - 132,332,913 (+)NCBI
mRatBN7.27130,432,316 - 130,454,053 (+)NCBI
Rnor_6.07140,959,164 - 140,981,588 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006257371   ⟹   XP_006257433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,310,955 - 132,332,913 (+)NCBI
mRatBN7.27130,432,098 - 130,454,053 (+)NCBI
Rnor_6.07140,958,952 - 140,981,588 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006257372   ⟹   XP_006257434
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,426 - 132,331,630 (+)NCBI
mRatBN7.27130,433,758 - 130,452,768 (+)NCBI
Rnor_6.07140,965,995 - 140,980,242 (+)NCBI
Rnor_5.0X115,463,331 - 115,485,029 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765767   ⟹   XP_008763989
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,425 - 132,332,913 (+)NCBI
mRatBN7.27130,433,756 - 130,454,053 (+)NCBI
Rnor_6.07140,965,994 - 140,981,588 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008765768   ⟹   XP_008763990
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,186 - 132,332,913 (+)NCBI
mRatBN7.27130,432,349 - 130,454,053 (+)NCBI
Rnor_6.07140,959,163 - 140,981,588 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039079641   ⟹   XP_038935569
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,271,582 - 132,332,913 (+)NCBI
mRatBN7.27130,392,716 - 130,454,053 (+)NCBI
RefSeq Acc Id: XM_039079642   ⟹   XP_038935570
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,271,469 - 132,332,913 (+)NCBI
mRatBN7.27130,392,611 - 130,454,053 (+)NCBI
RefSeq Acc Id: XM_039079643   ⟹   XP_038935571
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,427 - 132,331,733 (+)NCBI
mRatBN7.27130,433,758 - 130,452,768 (+)NCBI
RefSeq Acc Id: XM_063263955   ⟹   XP_063120025
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,427 - 132,332,913 (+)NCBI
RefSeq Acc Id: XM_063263956   ⟹   XP_063120026
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,428 - 132,332,913 (+)NCBI
RefSeq Acc Id: XM_063263957   ⟹   XP_063120027
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,310,956 - 132,332,913 (+)NCBI
RefSeq Acc Id: XM_063263958   ⟹   XP_063120028
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,310,956 - 132,332,913 (+)NCBI
RefSeq Acc Id: XM_063263959   ⟹   XP_063120029
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,427 - 132,332,913 (+)NCBI
RefSeq Acc Id: XM_063263960   ⟹   XP_063120030
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,310,947 - 132,332,913 (+)NCBI
RefSeq Acc Id: XR_010053022
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87132,311,428 - 132,330,519 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001128055   ⟸   NM_001134583
- UniProtKB: F1LTJ8 (UniProtKB/TrEMBL),   A6KCE7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257431   ⟸   XM_006257369
- Peptide Label: isoform X7
- UniProtKB: A0A8I6ALK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257433   ⟸   XM_006257371
- Peptide Label: isoform X14
- UniProtKB: A0A8I6ALK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257432   ⟸   XM_006257370
- Peptide Label: isoform X12
- UniProtKB: F1LTJ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257434   ⟸   XM_006257372
- Peptide Label: isoform X16
- Sequence:
RefSeq Acc Id: XP_006257429   ⟸   XM_006257367
- Peptide Label: isoform X4
- UniProtKB: A0A8I6ALK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257426   ⟸   XM_006257364
- Peptide Label: isoform X1
- UniProtKB: A0A8I6ALK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257427   ⟸   XM_006257365
- Peptide Label: isoform X2
- UniProtKB: F1LTJ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006257428   ⟸   XM_006257366
- Peptide Label: isoform X3
- UniProtKB: A0A8I6ALK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763990   ⟸   XM_008765768
- Peptide Label: isoform X15
- UniProtKB: A0A8I6ALK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008763989   ⟸   XM_008765767
- Peptide Label: isoform X10
- UniProtKB: A0A8I6ALK3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071841   ⟸   ENSRNOT00000091306
RefSeq Acc Id: XP_038935570   ⟸   XM_039079642
- Peptide Label: isoform X15
- UniProtKB: A0A8I6ALK3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935569   ⟸   XM_039079641
- Peptide Label: isoform X12
- UniProtKB: F1LTJ8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038935571   ⟸   XM_039079643
- Peptide Label: isoform X17
RefSeq Acc Id: ENSRNOP00000094837   ⟸   ENSRNOT00000113722
RefSeq Acc Id: ENSRNOP00000080666   ⟸   ENSRNOT00000113677
RefSeq Acc Id: XP_063120030   ⟸   XM_063263960
- Peptide Label: isoform X13
RefSeq Acc Id: XP_063120027   ⟸   XM_063263957
- Peptide Label: isoform X8
- UniProtKB: A0A8I5ZQT3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063120028   ⟸   XM_063263958
- Peptide Label: isoform X9
RefSeq Acc Id: XP_063120025   ⟸   XM_063263955
- Peptide Label: isoform X5
RefSeq Acc Id: XP_063120029   ⟸   XM_063263959
- Peptide Label: isoform X11
RefSeq Acc Id: XP_063120026   ⟸   XM_063263956
- Peptide Label: isoform X6
Protein Domains
FF   WW

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LTJ8-F1-model_v2 AlphaFold F1LTJ8 1-867 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565411 AgrOrtholog
BioCyc Gene G2FUF-32079 BioCyc
Ensembl Genes ENSRNOG00000052539 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000091306 ENTREZGENE
  ENSRNOT00000091306.2 UniProtKB/TrEMBL
  ENSRNOT00000113677.1 UniProtKB/TrEMBL
  ENSRNOT00000113722.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.440 UniProtKB/TrEMBL
  2.20.70.10 UniProtKB/TrEMBL
InterPro FF_domain UniProtKB/TrEMBL
  FF_domain_sf UniProtKB/TrEMBL
  Prp40/Urn1 UniProtKB/TrEMBL
  WW_dom UniProtKB/TrEMBL
  WW_dom_sf UniProtKB/TrEMBL
KEGG Report rno:363000 UniProtKB/TrEMBL
NCBI Gene 363000 ENTREZGENE
PANTHER PRE-MRNA-PROCESSING FACTOR 40 HOMOLOG B UniProtKB/TrEMBL
  PTHR11864 UniProtKB/TrEMBL
Pfam PF00397 UniProtKB/TrEMBL
  PF01846 UniProtKB/TrEMBL
PhenoGen Prpf40b PhenoGen
PRINTS PRICHEXTENSN UniProtKB/TrEMBL
PROSITE PS51676 UniProtKB/TrEMBL
  WW_DOMAIN_1 UniProtKB/TrEMBL
  WW_DOMAIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000052539 RatGTEx
SMART SM00441 UniProtKB/TrEMBL
  SM00456 UniProtKB/TrEMBL
Superfamily-SCOP 81698 UniProtKB/TrEMBL
  WW_Rsp5_WWP UniProtKB/TrEMBL
UniProt A0A8I5ZQT3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6ALK3 ENTREZGENE, UniProtKB/TrEMBL
  A6KCE7 ENTREZGENE, UniProtKB/TrEMBL
  F1LTJ8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Prpf40b  pre-mRNA processing factor 40 homolog B  LOC103692979  uncharacterized LOC103692979  Data merged from RGD:9166482 737654 PROVISIONAL
2015-12-02 Prpf40b  pre-mRNA processing factor 40 homolog B  Prpf40b  PRP40 homolog, pre-mRNA processing factor B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-17 Prpf40b  PRP40 homolog, pre-mRNA processing factor B  Prpf40b  PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-08-25 LOC103692979  uncharacterized LOC103692979      Symbol and Name status set to provisional 70820 PROVISIONAL
2012-10-12 Prpf40b  PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae)  RGD1565411  similar to 2610317D23Rik protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1565411  similar to 2610317D23Rik protein   RGD1565411_predicted  similar to 2610317D23Rik protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565411_predicted  similar to 2610317D23Rik protein (predicted)  LOC363000  similar to 2610317D23Rik protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC363000  similar to 2610317D23Rik protein      Symbol and Name status set to provisional 70820 PROVISIONAL