ldb1a LIM domain binding 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ldb1aprovided by ZNC
Official Full Name: LIM domain binding 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-138
See related: Ensembl:ENSDARG00000010137 AllianceGenome:ZFIN:ZDB-GENE-990415-138
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: ldb4; ldb4b
Summary: Enables LIM domain binding activity. Predicted to be involved in negative regulation of transcription by RNA polymerase II; nervous system development; and positive regulation of transcription by RNA polymerase II. Located in nucleus. Is expressed in brain; eye; gill; heart; and pleuroperitoneal region. Orthologous to human LDB1 (LIM domain binding 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 13

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	13	NC_007124.7 (28701226..28745754)
105	previous assembly	GRCz10 (GCF_000002035.5)	13	NC_007124.6 (28570680..28615305)

Chromosome 13 - NC_007124.7 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?

Ldb4b (splice isoform lacking LID) is localized in the nucleus when expressed in mammalian culture cells, and binds to Ldb4a (splice isoform containing LID) but not directly to LIM proteins.
Title: Spliced isoforms of LIM-domain-binding protein (CLIM/NLI/Ldb) lacking the LIM-interaction domain.

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General gene information

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Markers

ldb4 (e-PCR), detects polymorphism
- UniSTS:186983

fa09d05.r1 (e-PCR)
- UniSTS:189563

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables LIM domain binding	IDA Inferred from Direct Assay more info	PubMed
enables LIM domain binding	IEA Inferred from Electronic Annotation more info
enables LIM domain binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription coregulator activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of transcription by RNA polymerase II	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	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: LIM domain-binding protein 1-A

Names: LDB-1-A; LDB-4; LIM domain-binding protein 4; LIM-domain binding factor 1a; LIM-domain binding factor 4; LIM-domain binding factor 4b; zLdb4

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.