plxnb2a.1 plexin b2a, tandem duplicate 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: plxnb2a.1provided by ZNC
Official Full Name: plexin b2a, tandem duplicate 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-8917
See related: Ensembl:ENSDARG00000003811 AllianceGenome:ZFIN:ZDB-GENE-030131-8917
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: plxnB2; fk37b01; plxnb2a; im:7054697; wu:fk37b01; si:dkey-261e22.2
Summary: Predicted to enable semaphorin receptor activity. Acts upstream of or within sprouting angiogenesis. Predicted to be located in membrane. Predicted to be part of semaphorin receptor complex. Predicted to be active in plasma membrane. Is expressed in head; nervous system; otic vesicle; pectoral fin; and trunk. Orthologous to human PLXNB2 (plexin B2). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 4

Exon count:: 38

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	4	NC_007115.7 (14449233..14624520, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	4	NC_007115.6 (14450478..14625999, complement)

Chromosome 4 - NC_007115.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

Knockdown of both plxnb2a and plxnb2b simultaneously (>95% and 45%, respectively) resulted in normal CNS structure, axon guidance and swimming performance of the morphants.
Title: Conservation, expression, and knockdown of zebrafish plxnb2a and plxnb2b.
Loss of plxnB2 results in delayed ISV sprouting identical to that seen in sema3e morphants, while loss of plexinD1 in out of bounds (obd) mutants results in precocious ISV sprouting.
Title: Antagonistic interactions among Plexins regulate the timing of intersegmental vessel formation.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

fb75d06.x1 (e-PCR)
- UniSTS:191242

fb75d06 (e-PCR)
- UniSTS:187489

fk37b01.x1 (e-PCR)
- UniSTS:200923

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables semaphorin receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables semaphorin receptor activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in axon guidance	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of axonogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of cell shape	IBA Inferred from Biological aspect of Ancestor more info
involved_in semaphorin-plexin signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within semaphorin-plexin signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within sprouting angiogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within sprouting angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synapse assembly	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
part_of semaphorin receptor complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: plexin-B2a

Names: plexin b2a

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_001161600.1 → NP_001155072.1 plexin-B2a precursor

See identical proteins and their annotated locations for NP_001155072.1

Status: PROVISIONAL

Source sequence(s)

EU743740

UniProtKB/TrEMBL

C5H5I1

Related

ENSDARP00000048820.7, ENSDART00000048821.7

Conserved Domains (8) summary

cd11276
Location:26 → 488

Sema_plexin_B2; The Sema domain, a protein interacting module, of Plexin B2

smart00213
Location:1492 → 1585

UBQ; Ubiquitin homologues

smart00423
Location:786 → 829

PSI; domain found in Plexins, Semaphorins and Integrins

cd00603
Location:931 → 1020

IPT_PCSR; IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the ...

pfam01437
Location:490 → 534

PSI; Plexin repeat

pfam01833
Location:1022 → 1119

TIG; IPT/TIG domain

pfam08337
Location:1299 → 1831

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

cl15674
Location:831 → 930

IPT; Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor ...

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_007115.7 Reference GRCz11 Primary Assembly

Range

14449233..14624520 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_009300284.4 → XP_009298559.1 plexin-B2a isoform X1

See identical proteins and their annotated locations for XP_009298559.1

UniProtKB/TrEMBL

A0A0R4IB44, A0A8M3AYR6, F1QBC0

Conserved Domains (8) summary

cd11276
Location:26 → 488

Sema_plexin_B2; The Sema domain, a protein interacting module, of Plexin B2

smart00213
Location:1492 → 1585

UBQ; Ubiquitin homologues

smart00423
Location:786 → 829

PSI; domain found in Plexins, Semaphorins and Integrins

cd00603
Location:931 → 1020

IPT_PCSR; IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the ...

pfam01437
Location:490 → 534

PSI; Plexin repeat

pfam01833
Location:1022 → 1119

TIG; IPT/TIG domain

pfam08337
Location:1299 → 1831

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

cl15674
Location:831 → 930

IPT; Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor ...
XM_009300283.4 → XP_009298558.1 plexin-B2a isoform X1

See identical proteins and their annotated locations for XP_009298558.1

UniProtKB/TrEMBL

A0A0R4IB44, A0A8M3AYR6, F1QBC0

Conserved Domains (8) summary

cd11276
Location:26 → 488

Sema_plexin_B2; The Sema domain, a protein interacting module, of Plexin B2

smart00213
Location:1492 → 1585

UBQ; Ubiquitin homologues

smart00423
Location:786 → 829

PSI; domain found in Plexins, Semaphorins and Integrins

cd00603
Location:931 → 1020

IPT_PCSR; IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the ...

pfam01437
Location:490 → 534

PSI; Plexin repeat

pfam01833
Location:1022 → 1119

TIG; IPT/TIG domain

pfam08337
Location:1299 → 1831

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

cl15674
Location:831 → 930

IPT; Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor ...