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PRPF40B pre-mRNA processing factor 40 homolog B [ Homo sapiens (human) ]

Gene ID: 25766, updated on 17-Jun-2024

Summary

Official Symbol
PRPF40Bprovided by HGNC
Official Full Name
pre-mRNA processing factor 40 homolog Bprovided by HGNC
Primary source
HGNC:HGNC:25031
See related
Ensembl:ENSG00000110844 AllianceGenome:HGNC:25031
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
HYPC
Summary
This gene encodes a WW-domain containing protein similar to yeast splicing factor PRP40. This protein has been shown to interact with Huntingtin and methyl CpG binding protein 2 (MeCP2). Alternative splicing results in different transcript variants. [provided by RefSeq, Aug 2014]
Expression
Broad expression in testis (RPKM 13.2), thyroid (RPKM 7.6) and 23 other tissues See more
Orthologs
NEW
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Try the new Transcript table

Genomic context

See PRPF40B in Genome Data Viewer
Location:
12q13.12
Exon count:
30
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (49622646..49644665)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (49585655..49607675)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (50017344..50038448)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 186 member B Neighboring gene PARK7 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4440 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6320 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4441 Neighboring gene HIG1 hypoxia inducible domain family member 1A pseudogene 9 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:50041399-50042391 Neighboring gene formin like 3 Neighboring gene ReSE screen-validated silencer GRCh37_chr12:50052522-50052699 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:50056671-50057609 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:50067301-50067999 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6322 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6323 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr12:50090751-50091252 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6324 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6325 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6326 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6327 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6328 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4442 Neighboring gene uncharacterized LOC124902929 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6329 Neighboring gene cytochrome c oxidase subunit 5B pseudogene 5 Neighboring gene MPRA-validated peak1727 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:50134965-50135656 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6332 Neighboring gene transmembrane BAX inhibitor motif containing 6

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in mRNA cis splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
 
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
part_of U1 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of U2-type prespliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nuclear speck IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
pre-mRNA-processing factor 40 homolog B
Names
Huntingtin interacting protein C
PRP40 pre-mRNA processing factor 40 homolog B
huntingtin yeast partner C

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_032901.2 RefSeqGene

    Range
    60197..81452
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_625

mRNA and Protein(s)

  1. NM_001031698.3NP_001026868.2  pre-mRNA-processing factor 40 homolog B isoform 1

    See identical proteins and their annotated locations for NP_001026868.2

    Status: REVIEWED

    Source sequence(s)
    AC020612
    Consensus CDS
    CCDS31796.2
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    UniProtKB/TrEMBL
    F8VU11
    Related
    ENSP00000448073.2, ENST00000548825.7
    Conserved Domains (6) summary
    smart00441
    Location:655703
    FF; Contains two conserved F residues
    COG5104
    Location:111603
    PRP40; Splicing factor [RNA processing and modification]
    cd00201
    Location:159188
    WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
    pfam00397
    Location:120145
    WW; WW domain
    pfam01846
    Location:300349
    FF; FF domain
    cl21455
    Location:422480
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
  2. NM_001363607.2NP_001350536.2  pre-mRNA-processing factor 40 homolog B isoform 3

    Status: REVIEWED

    Source sequence(s)
    AC020612
    Consensus CDS
    CCDS86298.2
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    UniProtKB/TrEMBL
    A0A8Z5ADK7
    Related
    ENSP00000369634.2, ENST00000380281.6
    Conserved Domains (2) summary
    smart00441
    Location:655703
    FF; Contains two conserved F residues
    COG5104
    Location:111603
    PRP40; Splicing factor [RNA processing and modification]
  3. NM_001379030.1NP_001365959.1  pre-mRNA-processing factor 40 homolog B isoform 4

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (2) summary
    smart00441
    Location:645693
    FF; Contains two conserved F residues
    COG5104
    Location:111593
    PRP40; Splicing factor [RNA processing and modification]
  4. NM_001379031.1NP_001365960.1  pre-mRNA-processing factor 40 homolog B isoform 5

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (2) summary
    smart00441
    Location:628676
    FF; Contains two conserved F residues
    COG5104
    Location:84576
    PRP40; Splicing factor [RNA processing and modification]
  5. NM_001379032.1NP_001365961.1  pre-mRNA-processing factor 40 homolog B isoform 6

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (2) summary
    smart00441
    Location:628676
    FF; Contains two conserved F residues
    COG5104
    Location:84576
    PRP40; Splicing factor [RNA processing and modification]
  6. NM_001379033.1NP_001365962.1  pre-mRNA-processing factor 40 homolog B isoform 7

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (2) summary
    smart00441
    Location:618666
    FF; Contains two conserved F residues
    COG5104
    Location:117566
    PRP40; Splicing factor [RNA processing and modification]
  7. NM_001379034.1NP_001365963.1  pre-mRNA-processing factor 40 homolog B isoform 8

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (2) summary
    smart00441
    Location:618666
    FF; Contains two conserved F residues
    COG5104
    Location:117566
    PRP40; Splicing factor [RNA processing and modification]
  8. NM_001379035.1NP_001365964.1  pre-mRNA-processing factor 40 homolog B isoform 9

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (2) summary
    smart00441
    Location:591639
    FF; Contains two conserved F residues
    COG5104
    Location:90539
    PRP40; Splicing factor [RNA processing and modification]
  9. NM_001379036.1NP_001365965.1  pre-mRNA-processing factor 40 homolog B isoform 10

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (2) summary
    smart00441
    Location:591639
    FF; Contains two conserved F residues
    COG5104
    Location:90539
    PRP40; Splicing factor [RNA processing and modification]
  10. NM_001379037.1NP_001365966.1  pre-mRNA-processing factor 40 homolog B isoform 11

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (2) summary
    smart00441
    Location:536584
    FF; Contains two conserved F residues
    COG5104
    Location:90484
    PRP40; Splicing factor [RNA processing and modification]
  11. NM_012272.3NP_036404.1  pre-mRNA-processing factor 40 homolog B isoform 2

    See identical proteins and their annotated locations for NP_036404.1

    Status: REVIEWED

    Source sequence(s)
    AC020612
    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Related
    ENSP00000261897.1, ENST00000261897.5
    Conserved Domains (6) summary
    smart00441
    Location:620668
    FF; Contains two conserved F residues
    COG5104
    Location:83568
    PRP40; Splicing factor [RNA processing and modification]
    cd00201
    Location:131160
    WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
    pfam00397
    Location:92117
    WW; WW domain
    pfam01846
    Location:272321
    FF; FF domain
    cl21455
    Location:394452
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    49622646..49644665
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047428678.1XP_047284634.1  pre-mRNA-processing factor 40 homolog B isoform X11

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  2. XM_017019135.3XP_016874624.1  pre-mRNA-processing factor 40 homolog B isoform X10

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  3. XM_011538139.4XP_011536441.1  pre-mRNA-processing factor 40 homolog B isoform X4

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (6) summary
    smart00441
    Location:655703
    FF; Contains two conserved F residues
    COG5104
    Location:111603
    PRP40; Splicing factor [RNA processing and modification]
    cd00201
    Location:159188
    WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
    pfam00397
    Location:120145
    WW; WW domain
    pfam01846
    Location:300349
    FF; FF domain
    cl21455
    Location:422480
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
  4. XM_011538140.4XP_011536442.1  pre-mRNA-processing factor 40 homolog B isoform X5

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (6) summary
    smart00441
    Location:655703
    FF; Contains two conserved F residues
    COG5104
    Location:111603
    PRP40; Splicing factor [RNA processing and modification]
    cd00201
    Location:159188
    WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
    pfam00397
    Location:120145
    WW; WW domain
    pfam01846
    Location:300349
    FF; FF domain
    cl21455
    Location:422480
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
  5. XM_011538143.4XP_011536445.1  pre-mRNA-processing factor 40 homolog B isoform X8

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (6) summary
    smart00441
    Location:628676
    FF; Contains two conserved F residues
    COG5104
    Location:84576
    PRP40; Splicing factor [RNA processing and modification]
    cd00201
    Location:132161
    WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
    pfam00397
    Location:93118
    WW; WW domain
    pfam01846
    Location:273322
    FF; FF domain
    cl21455
    Location:395453
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
  6. XM_047428677.1XP_047284633.1  pre-mRNA-processing factor 40 homolog B isoform X9

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  7. XM_047428674.1XP_047284630.1  pre-mRNA-processing factor 40 homolog B isoform X3

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  8. XM_047428676.1XP_047284632.1  pre-mRNA-processing factor 40 homolog B isoform X7

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  9. XM_047428675.1XP_047284631.1  pre-mRNA-processing factor 40 homolog B isoform X6

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  10. XM_047428679.1XP_047284635.1  pre-mRNA-processing factor 40 homolog B isoform X13

  11. XM_017019138.2XP_016874627.1  pre-mRNA-processing factor 40 homolog B isoform X12

  12. XM_006719324.5XP_006719387.1  pre-mRNA-processing factor 40 homolog B isoform X1

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (6) summary
    smart00441
    Location:717765
    FF; Contains two conserved F residues
    COG5104
    Location:173665
    PRP40; Splicing factor [RNA processing and modification]
    cd00201
    Location:221250
    WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
    pfam00397
    Location:182207
    WW; WW domain
    pfam01846
    Location:362411
    FF; FF domain
    cl21455
    Location:484542
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
  13. XM_006719325.5XP_006719388.1  pre-mRNA-processing factor 40 homolog B isoform X2

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
    Conserved Domains (6) summary
    smart00441
    Location:717765
    FF; Contains two conserved F residues
    COG5104
    Location:173665
    PRP40; Splicing factor [RNA processing and modification]
    cd00201
    Location:221250
    WW; Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other ...
    pfam00397
    Location:182207
    WW; WW domain
    pfam01846
    Location:362411
    FF; FF domain
    cl21455
    Location:484542
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    49585655..49607675
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054371695.1XP_054227670.1  pre-mRNA-processing factor 40 homolog B isoform X11

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  2. XM_054371694.1XP_054227669.1  pre-mRNA-processing factor 40 homolog B isoform X10

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  3. XM_054371688.1XP_054227663.1  pre-mRNA-processing factor 40 homolog B isoform X4

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  4. XM_054371689.1XP_054227664.1  pre-mRNA-processing factor 40 homolog B isoform X5

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  5. XM_054371692.1XP_054227667.1  pre-mRNA-processing factor 40 homolog B isoform X8

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  6. XM_054371693.1XP_054227668.1  pre-mRNA-processing factor 40 homolog B isoform X9

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  7. XM_054371687.1XP_054227662.1  pre-mRNA-processing factor 40 homolog B isoform X3

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  8. XM_054371691.1XP_054227666.1  pre-mRNA-processing factor 40 homolog B isoform X7

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  9. XM_054371690.1XP_054227665.1  pre-mRNA-processing factor 40 homolog B isoform X6

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  10. XM_054371697.1XP_054227672.1  pre-mRNA-processing factor 40 homolog B isoform X13

  11. XM_054371696.1XP_054227671.1  pre-mRNA-processing factor 40 homolog B isoform X12

  12. XM_054371685.1XP_054227660.1  pre-mRNA-processing factor 40 homolog B isoform X1

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95
  13. XM_054371686.1XP_054227661.1  pre-mRNA-processing factor 40 homolog B isoform X2

    UniProtKB/Swiss-Prot
    O75401, Q6NWY9, Q6PI09, Q6ZWB3, Q8NCZ1, Q9H5G4, Q9NT95

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NR_052006.1: Suppressed sequence

    Description
    NR_052006.1: This RefSeq was permanently suppressed because it is now thought that this transcript does encode a protein.