ptbp1b polypyrimidine tract binding protein 1b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ptbp1bprovided by ZNC
Official Full Name: polypyrimidine tract binding protein 1bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-9796
See related: Ensembl:ENSDARG00000031907 AllianceGenome:ZFIN:ZDB-GENE-030131-9796
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: cb363; sb:cb363; id:ibd2901; im:7145323; wu:fa04b05; wu:fb16f08; wu:fc58e03; si:ch211-262i1.1
Summary: Predicted to enable mRNA binding activity. Predicted to be involved in regulation of RNA splicing and regulation of cell differentiation. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be active in nucleus. Is expressed in several structures, including EVL; axis; mesoderm; nervous system; and pronephric duct. Orthologous to human PTBP1 (polypyrimidine tract binding protein 1). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 11

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	11	NC_007122.7 (14321113..14342650)
105	previous assembly	GRCz10 (GCF_000002035.5)	11	NC_007122.6 (14263454..14284991)

Chromosome 11 - NC_007122.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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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

fc58e03.x1 (e-PCR)
- UniSTS:188206

fa04b05.s1 (e-PCR)
- UniSTS:202187

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
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
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in regulation of RNA splicing	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of cell differentiation	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: polypyrimidine tract-binding protein 1b

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_001122654.1 → NP_001116126.1 polypyrimidine tract-binding protein 1b

Status: VALIDATED

Source sequence(s)

CR847939

UniProtKB/TrEMBL

A0A8M1NGA8, F1QKG2

Related

ENSDARP00000039821.7, ENSDART00000039822.9

Conserved Domains (3) summary

cd12693
Location:188 → 283

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

TIGR01649
Location:69 → 564

hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

cl17169
Location:371 → 463

RRM_SF; RNA recognition motif (RRM) superfamily

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007122.7 Reference GRCz11 Primary Assembly

Range

14321113..14342650

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_009305880.3 → XP_009304155.1 polypyrimidine tract-binding protein 1b isoform X2

UniProtKB/TrEMBL

A0A8M3BDK1

Conserved Domains (3) summary

cd12693
Location:142 → 237

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

TIGR01649
Location:23 → 518

hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

cl17169
Location:325 → 417

RRM_SF; RNA recognition motif (RRM) superfamily
XM_068224108.1 → XP_068080209.1 polypyrimidine tract-binding protein 1b isoform X2

UniProtKB/TrEMBL

A0A8M3BDK1
XM_005155938.5 → XP_005155995.1 polypyrimidine tract-binding protein 1b isoform X1

UniProtKB/TrEMBL

A0A8M2B222

Conserved Domains (3) summary

cd12693
Location:171 → 266

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

TIGR01649
Location:52 → 547

hnRNP-L_PTB; hnRNP-L/PTB/hephaestus splicing factor family

cl17169
Location:354 → 446

RRM_SF; RNA recognition motif (RRM) superfamily