Prpf4 (pre-mRNA splicing tri-snRNP complex factor PRPF4) - Rat Genome Database

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Gene: Prpf4 (pre-mRNA splicing tri-snRNP complex factor PRPF4) Ictidomys tridecemlineatus
Analyze
Symbol: Prpf4
Name: pre-mRNA splicing tri-snRNP complex factor PRPF4 (Ensembl:pre-mRNA processing factor 4)
RGD ID: 12531061
Description: ENCODES a protein that exhibits U4 snRNA binding (inferred); U6 snRNA binding (inferred); INVOLVED IN mRNA splicing, via spliceosome (inferred); PARTICIPATES IN spliceosome pathway; ASSOCIATED WITH fundus dystrophy (ortholog); genetic disease (ortholog); retinitis pigmentosa 70 (ortholog); FOUND IN U4/U6 x U5 tri-snRNP complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: pre-mRNA processing factor 4; PRP4 pre-mRNA processing factor 4 homolog; U4/U6 small nuclear ribonucleoprotein Prp4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947182,945,462 - 182,961,106 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936559305,392 - 321,080 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936559305,443 - 321,051 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Prpf4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947182,945,462 - 182,961,106 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936559305,392 - 321,080 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936559305,443 - 321,051 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PRPF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389113,275,658 - 113,292,905 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9113,275,642 - 113,294,009 (+)EnsemblGRCh38hg38GRCh38
GRCh379116,037,938 - 116,055,185 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369115,077,795 - 115,094,877 (+)NCBINCBI36Build 36hg18NCBI36
Build 349113,117,527 - 113,134,608NCBI
Celera986,685,588 - 86,702,671 (+)NCBICelera
Cytogenetic Map9q32NCBI
HuRef985,645,378 - 85,662,571 (+)NCBIHuRef
CHM1_19116,184,652 - 116,201,881 (+)NCBICHM1_1
T2T-CHM13v2.09125,474,498 - 125,491,706 (+)NCBIT2T-CHM13v2.0
Prpf4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39462,327,002 - 62,345,227 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl462,327,034 - 62,345,227 (+)EnsemblGRCm39 Ensembl
GRCm38462,408,762 - 62,426,990 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl462,408,797 - 62,426,990 (+)EnsemblGRCm38mm10GRCm38
MGSCv37462,069,817 - 62,088,024 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36461,895,144 - 61,913,351 (+)NCBIMGSCv36mm8
Celera461,078,790 - 61,096,997 (+)NCBICelera
Cytogenetic Map4B3NCBI
cM Map433.13NCBI
Prpf4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8580,875,511 - 80,889,501 (+)NCBIGRCr8
mRatBN7.2575,859,934 - 75,873,924 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl575,859,924 - 75,873,919 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx578,259,638 - 78,273,565 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0580,076,735 - 80,090,662 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0580,052,244 - 80,066,171 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0578,267,248 - 78,281,172 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl578,267,248 - 78,281,172 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0582,386,980 - 82,400,904 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4579,403,879 - 79,417,803 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1579,409,026 - 79,422,982 (+)NCBI
Celera574,801,540 - 74,815,464 (+)NCBICelera
Cytogenetic Map5q24NCBI
Prpf4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541914,190,152 - 14,206,086 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541914,190,146 - 14,206,086 (-)NCBIChiLan1.0ChiLan1.0
PRPF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21126,085,043 - 26,102,372 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1926,084,152 - 26,104,646 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0984,373,457 - 84,390,622 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19112,745,455 - 112,763,725 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9112,745,455 - 112,763,725 (+)Ensemblpanpan1.1panPan2
PRPF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11167,641,332 - 67,659,070 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1167,641,459 - 67,657,870 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1166,046,127 - 66,063,767 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01168,766,195 - 68,783,840 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1168,766,284 - 68,785,517 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11167,283,802 - 67,301,437 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01167,305,942 - 67,323,360 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01168,051,720 - 68,069,410 (+)NCBIUU_Cfam_GSD_1.0
PRPF4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1253,906,717 - 253,925,046 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11253,906,258 - 253,925,683 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21284,659,940 - 284,677,112 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PRPF4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11226,279,510 - 26,296,771 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603516,504,524 - 16,523,004 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Prpf4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476021,805,035 - 21,820,402 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476021,803,740 - 21,820,492 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000024214   ⟹   ENSSTOP00000022510
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936559307,008 - 320,970 (-)Ensembl
RefSeq Acc Id: ENSSTOT00000033383   ⟹   ENSSTOP00000025005
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936559305,392 - 321,080 (-)Ensembl
RefSeq Acc Id: XM_005329689   ⟹   XP_005329746
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947182,945,462 - 182,961,106 (+)NCBI
SpeTri2.0NW_004936559305,443 - 321,051 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040286169   ⟹   XP_040142103
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947182,952,095 - 182,961,106 (+)NCBI
Protein Sequences
Protein RefSeqs XP_005329746 (Get FASTA)   NCBI Sequence Viewer  
  XP_040142103 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000022510.2
  ENSSTOP00000025005.1
Reference Protein Sequences
RefSeq Acc Id: XP_005329746   ⟸   XM_005329689
- Peptide Label: isoform X1
- UniProtKB: A0A287CUJ8 (UniProtKB/TrEMBL),   I3NDR3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040142103   ⟸   XM_040286169
- Peptide Label: isoform X2
RefSeq Acc Id: ENSSTOP00000022510   ⟸   ENSSTOT00000024214
RefSeq Acc Id: ENSSTOP00000025005   ⟸   ENSSTOT00000033383
Protein Domains
Pre-mRNA processing factor 4 (PRP4)-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000027833 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000024214.2 UniProtKB/TrEMBL
  ENSSTOT00000033383.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/TrEMBL
  4.10.280.110 UniProtKB/TrEMBL
InterPro G-protein_beta_WD-40_rep UniProtKB/TrEMBL
  PRP4-like UniProtKB/TrEMBL
  PRP4-like_sf UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/TrEMBL
  WD40_repeat UniProtKB/TrEMBL
  WD40_repeat_CS UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
NCBI Gene Prpf4 ENTREZGENE
PANTHER U4/U6 SMALL NUCLEAR RIBONUCLEOPROTEIN PRP4 UniProtKB/TrEMBL
  WD40 REPEAT PROTEIN UniProtKB/TrEMBL
Pfam PRP4 UniProtKB/TrEMBL
  WD40 UniProtKB/TrEMBL
PRINTS GPROTEINBRPT UniProtKB/TrEMBL
PROSITE WD_REPEATS_1 UniProtKB/TrEMBL
  WD_REPEATS_2 UniProtKB/TrEMBL
  WD_REPEATS_REGION UniProtKB/TrEMBL
SMART SFM UniProtKB/TrEMBL
  WD40 UniProtKB/TrEMBL
Superfamily-SCOP SSF158230 UniProtKB/TrEMBL
  SSF50978 UniProtKB/TrEMBL
UniProt A0A287CUJ8 ENTREZGENE, UniProtKB/TrEMBL
  I3NDR3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-12-26 Prpf4  pre-mRNA splicing tri-snRNP complex factor PRPF4  Prpf4  pre-mRNA processing factor 4  Symbol and/or name change 5135510 APPROVED