ptbp2b polypyrimidine tract binding protein 2b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ptbp2bprovided by ZNC
Official Full Name: polypyrimidine tract binding protein 2bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-060810-49
See related: Ensembl:ENSDARG00000015901 AllianceGenome:ZFIN:ZDB-GENE-060810-49
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: ptbp2; im:7153495; wu:fa08f05; wu:fc05d10; si:ch211-160l17.2
Summary: Predicted to enable mRNA binding activity. Predicted to be involved in regulation of RNA splicing. Predicted to act upstream of or within mRNA processing. Predicted to be active in nucleus. Is expressed in central nervous system; cranial ganglion; retinal ganglion cell layer; and retinal inner nuclear layer. Orthologous to human PTBP2 (polypyrimidine tract binding protein 2). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 2

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	2	NC_007113.7 (19777146..19795599)
105	previous assembly	GRCz10 (GCF_000002035.5)	2	NC_007113.6 (20118989..20137370)

Chromosome 2 - NC_007113.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

Two stretches of polypyrimidine tracts designated PPT1 and PPT2 which influence the IRES activity of cx55.5 protein were identified; deletion of PPT2 results in a complete loss of the IRES activity
Title: Characterization of the internal IRES element of the zebrafish connexin55.5 reveals functional implication of the polypyrimidine tract binding protein.

Submit: New GeneRIF Correction

General gene information

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Markers

AA542650 (e-PCR)
- UniSTS:206918

fc05d10.x1 (e-PCR)
- UniSTS:203707

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 mRNA processing	IEA Inferred from Electronic Annotation more info
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: polypyrimidine tract-binding protein 2b

Names: polypyrimidine tract binding protein 2

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_001100007.1 → NP_001093477.1 polypyrimidine tract-binding protein 2b

Status: PROVISIONAL

Source sequence(s)

BX005269

UniProtKB/TrEMBL

A0A8M1NDN2, A5PM68

Related

ENSDARP00000036256.7, ENSDART00000038648.10

Conserved Domains (5) summary

cd12693
Location:172 → 267

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

cd12696
Location:333 → 438

RRM3_PTBP2; RNA recognition motif 3 in vertebrate polypyrimidine tract-binding protein 2 (PTBP2)

cd12778
Location:53 → 134

RRM1_PTBP2; RNA recognition motif 1 in vertebrate polypyrimidine tract-binding protein 2 (PTBP2)

TIGR01649
Location:52 → 538

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

cl17169
Location:459 → 538

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_007113.7 Reference GRCz11 Primary Assembly

Range

19777146..19795599

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005163345.5 → XP_005163402.1 polypyrimidine tract-binding protein 2b isoform X1

UniProtKB/TrEMBL

A0A8M2BAH6

Conserved Domains (5) summary

cd12693
Location:172 → 267

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

cd12696
Location:313 → 418

RRM3_PTBP2; RNA recognition motif 3 in vertebrate polypyrimidine tract-binding protein 2 (PTBP2)

cd12778
Location:53 → 134

RRM1_PTBP2; RNA recognition motif 1 in vertebrate polypyrimidine tract-binding protein 2 (PTBP2)

TIGR01649
Location:52 → 518

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

cl17169
Location:439 → 518

RRM_SF; RNA recognition motif (RRM) superfamily