Rprd1b regulation of nuclear pre-mRNA domain containing 1B [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Rprd1bprovided by MGI
Official Full Name: regulation of nuclear pre-mRNA domain containing 1Bprovided by MGI
Primary source: MGI:MGI:1917720
See related: Ensembl:ENSMUSG00000027651 AllianceGenome:MGI:1917720
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Crept; 2610304G08Rik; 2810446G03Rik
Summary: Predicted to enable RNA polymerase II complex binding activity and identical protein binding activity. Predicted to be involved in several processes, including RNA metabolic process; positive regulation of cell population proliferation; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of transcription preinitiation complex. Is expressed in several structures, including brain; genitourinary system; gut; hemolymphoid system gland; and mammary gland. Orthologous to human RPRD1B (regulation of nuclear pre-mRNA domain containing 1B). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in thymus adult (RPKM 11.4), limb E14.5 (RPKM 10.6) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2 H1; 2 78.72 cM

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (157870395..157920127)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (158028475..158078207)

Chromosome 2 - NC_000068.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Crosstalk between RNA Pol II C-terminal domain acetylation and phosphorylation via RPRD1B protein and its isoforms has been reported.
Title: Crosstalk between RNA Pol II C-Terminal Domain Acetylation and Phosphorylation via RPRD Proteins.
Mechanistically, CREPT regulated beta-catenin/TCF4/cyclin D1 pathway in BC. In conclusion, the data suggested that miR-138/CREPT involved BC progression, providing potential therapeutic targets for BC.
Title: CREPT regulated by miR-138 promotes breast cancer progression.
study suggests that CREPT acts as an activator to promote transcriptional activity of the beta-catenin.TCF4 complex in response to Wnt signaling.
Title: CREPT/RPRD1B, a recently identified novel protein highly expressed in tumors, enhances the β-catenin·TCF4 transcriptional activity in response to Wnt signaling.

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2) 1 citation
Transgenic (2) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH126524 (e-PCR)
- UniSTS:209664

RH129760 (e-PCR)
- UniSTS:213053

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA polymerase II C-terminal domain binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II complex binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II complex binding	ISS Inferred from Sequence or Structural Similarity more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in RNA polymerase II promoter clearance	ISO Inferred from Sequence Orthology more info
involved_in RNA polymerase II promoter clearance	ISS Inferred from Sequence or Structural Similarity more info
involved_in mRNA 3'-end processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cell cycle process	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell cycle process	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info
part_of transcription preinitiation complex	ISO Inferred from Sequence Orthology more info
part_of transcription preinitiation complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: regulation of nuclear pre-mRNA domain-containing protein 1B

Names: cell cycle-related and expression-elevated protein in tumor

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

NM_001291134.1 → NP_001278063.1 regulation of nuclear pre-mRNA domain-containing protein 1B isoform a

See identical proteins and their annotated locations for NP_001278063.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longest isoform (a).

Source sequence(s)

AI843346, AK011979, AK013301, AK035806, AK045404, AK147930

Consensus CDS

CCDS71177.1

UniProtKB/Swiss-Prot

A2ACF2, A2ACF4, A2ACF5, A2ACF6, Q1WDE6, Q3U8H1, Q3UGH1, Q3USX3, Q6GTJ6, Q9CSU0

Related

ENSMUSP00000029180.8, ENSMUST00000029180.14

Conserved Domains (2) summary

cd17012
Location:3 → 131

CID_RPRD1B; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B

pfam16566
Location:178 → 324

CREPT; Cell-cycle alteration and expression-elevated protein in tumor
NM_001291135.1 → NP_001278064.1 regulation of nuclear pre-mRNA domain-containing protein 1B isoform c

Status: VALIDATED

Description

Transcript Variant: This variant (3) contains an additional exon in the 3' region, and it thus differs in its 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (c) has a distinct C-terminus and is shorter than isoform a.

Source sequence(s)

AI843346, AK011979, AK013301, AK147930, AK152125, BP753919

Consensus CDS

CCDS71176.1

UniProtKB/Swiss-Prot

Q9CSU0

Related

ENSMUSP00000105144.2, ENSMUST00000109518.8

Conserved Domains (2) summary

smart00582
Location:8 → 126

RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA

pfam16566
Location:178 → 284

CREPT; Cell-cycle alteration and expression-elevated protein in tumour
NM_001291136.1 → NP_001278065.1 regulation of nuclear pre-mRNA domain-containing protein 1B isoform d

Status: VALIDATED

Description

Transcript Variant: This variant (4) lacks an alternate exon in the 5' region, and it thus differs in its 5' UTR and initiates translation at a downstream in-frame start codon, and it also uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (d) is shorter at the N-terminus, compared to isoform a.

Source sequence(s)

AI843346, AK011979, AK013301, AK045404, AK147930, BP753919

UniProtKB/Swiss-Prot

Q9CSU0

Related

ENSMUST00000156552.8

Conserved Domains (1) summary

pfam16566
Location:49 → 194

CREPT; Cell-cycle alteration and expression-elevated protein in tumor
NM_027434.3 → NP_081710.1 regulation of nuclear pre-mRNA domain-containing protein 1B isoform b

See identical proteins and their annotated locations for NP_081710.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.

Source sequence(s)

AI843346, AK011979, AK013301, AK045404, AK147930, BP753919

Consensus CDS

CCDS16984.1

UniProtKB/TrEMBL

A0A0R4J195

Related

ENSMUSP00000099412.4, ENSMUST00000103123.10

Conserved Domains (2) summary

cd17012
Location:3 → 131

CID_RPRD1B; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B

pfam16566
Location:177 → 323

CREPT; Cell-cycle alteration and expression-elevated protein in tumor

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000068.8 Reference GRCm39 C57BL/6J

Range

157870395..157920127

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006500163.2 → XP_006500226.1 regulation of nuclear pre-mRNA domain-containing protein 1B isoform X2

Related

ENSMUSP00000118434.2, ENSMUST00000152452.8

Conserved Domains (2) summary

cd17012
Location:3 → 131

CID_RPRD1B; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B

pfam16566
Location:178 → 218

CREPT; Cell-cycle alteration and expression-elevated protein in tumor
XM_011239773.3 → XP_011238075.1 regulation of nuclear pre-mRNA domain-containing protein 1B isoform X4

Conserved Domains (1) summary

pfam16566
Location:50 → 196

CREPT; Cell-cycle alteration and expression-elevated protein in tumor
XM_006500162.3 → XP_006500225.1 regulation of nuclear pre-mRNA domain-containing protein 1B isoform X1

Conserved Domains (2) summary

cd17012
Location:3 → 131

CID_RPRD1B; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B

pfam16566
Location:177 → 283

CREPT; Cell-cycle alteration and expression-elevated protein in tumor
XM_030252069.2 → XP_030107929.1 regulation of nuclear pre-mRNA domain-containing protein 1B isoform X3

Conserved Domains (2) summary

cd17012
Location:3 → 131

CID_RPRD1B; CID (CTD-Interacting Domain) of Regulation of nuclear pre-mRNA domain-containing protein 1B

pfam16566
Location:177 → 217

CREPT; Cell-cycle alteration and expression-elevated protein in tumor