ptb-1 RRM domain-containing protein [Caenorhabditis elegans] - Gene

Summary

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Gene symbol: ptb-1
Gene description: RRM domain-containing protein
Primary source: WormBase:WBGene00004207
Locus tag: CELE_D2089.4
See related: AllianceGenome:WB:WBGene00004207
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Predicted to enable mRNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome and regulation of RNA splicing. Predicted to be active in nucleus. Is expressed in several structures, including enteric muscle; head mesodermal cell; nervous system; pharynx; and reproductive system. Orthologous to human PTBP1 (polypyrimidine tract binding protein 1); PTBP2 (polypyrimidine tract binding protein 2); and PTBP3 (polypyrimidine tract binding protein 3). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:: chromosome: II

Exon count:: 15

Sequence:: Chromosome: II; NC_003280.10 (10675602..10690282)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

key role in conferring neuron-class specificity of exon 11.5 inclusion in daf-2 splicing
Title: Splicing factors control C. elegans behavioural learning in a single neuron by producing DAF-2c receptor.

Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D2089.4 (e-PCR)
- UniSTS:319193

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA splicing, via spliceosome	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in regulation of RNA splicing	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: RRM domain-containing protein

NP_741041.1

Confirmed by transcript evidence

NP_741042.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_003280.10 Reference assembly

Range

10675602..10690282

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_171035.7 → NP_741041.1 RRM domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_741041.1

Status: REVIEWED

UniProtKB/TrEMBL

Q18999

Conserved Domains (5) summary

cd12421
Location:122 → 195

RRM1_PTBP1_hnRNPL_like; RNA recognition motif in polypyrimidine tract-binding protein 1 (PTB or hnRNP I), heterogeneous nuclear ribonucleoprotein L (hnRNP-L), and similar proteins

cd12423
Location:422 → 495

RRM3_PTBP1_like; RNA recognition motif 3 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins

cd12425
Location:539 → 613

RRM4_PTBP1_like; RNA recognition motif 4 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins

cd12693
Location:229 → 324

RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins

TIGR01649
Location:119 → 615

hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family
NM_171036.7 → NP_741042.1 RRM domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_741042.1

Status: REVIEWED

UniProtKB/TrEMBL

Q8T3E6

Conserved Domains (3) summary

cd12423
Location:260 → 333

RRM3_PTBP1_like; RNA recognition motif 3 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins

cd12425
Location:377 → 451

RRM4_PTBP1_like; RNA recognition motif 4 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins

cd12693
Location:67 → 162

RRM2_PTBP1_like; RNA recognition motif 2 in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins