Ldb2 MGI Mouse Gene Detail - MGI:894670

Symbol

Ldb2
Name

LIM domain binding 2
Synonyms

CLIM1, CLIM-1a, CLIM-1b, CLP-36, Ldb3

Feature Type

protein coding gene
IDs

MGI:894670
NCBI Gene: 16826
Alliance

gene page
Transcription Start Sites

11 TSS

Sequence Map

Chr5:44629474-44957022 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 24.24 cM
Mapping Data

1 experiment

SNPs within 2kb

9495 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_894670	protein coding gene	Chr5:44593292-44957466 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0029530	protein coding gene	Chr5:43123828-43478950 (-)
A/J	MGP_AJ_G0029498	protein coding gene	Chr5:41641456-41978763 (-)
AKR/J	MGP_AKRJ_G0029446	protein coding gene	Chr5:43108441-43445459 (-)
BALB/cJ	MGP_BALBcJ_G0029507	protein coding gene	Chr5:42119808-42455365 (-)
C3H/HeJ	MGP_C3HHeJ_G0029230	protein coding gene	Chr5:43097690-43448281 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0029961	protein coding gene	Chr5:45198709-45549062 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0027200	protein coding gene	Chr5:38843324-39181117 (-)
CAST/EiJ	MGP_CASTEiJ_G0028638	protein coding gene	Chr5:42222844-42583485 (-)
CBA/J	MGP_CBAJ_G0029199	protein coding gene	Chr5:46394126-46772379 (-)
DBA/2J	MGP_DBA2J_G0029345	protein coding gene	Chr5:41727286-42064559 (-)
FVB/NJ	MGP_FVBNJ_G0029305	protein coding gene	Chr5:41155181-41489619 (-)
LP/J	MGP_LPJ_G0029430	protein coding gene	Chr5:43592973-43951447 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0029333	protein coding gene	Chr5:47182057-47548672 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0029994	protein coding gene	Chr5:42604260-42957293 (-)
PWK/PhJ	MGP_PWKPhJ_G0028362	protein coding gene	Chr5:40860047-41194581 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0028196	protein coding gene	Chr5:42058219-42417569 (-)
WSB/EiJ	MGP_WSBEiJ_G0028719	protein coding gene	Chr5:42690600-43042535 (-)

Human Ortholog

LDB2, LIM domain binding 2

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LDB2, LIM domain binding 2
Synonyms

CLIM1, LDB1, LDB-2
Links

HGNC:6533

NCBI Gene ID: 9079

neXtProt AC: NX_O43679

UniProt: O43679
Chr Location

4p15.32; chr4:16501541-16898678 (-) GRCh38

MGI Vertebrate Homology

Ldb2 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: LDB2
Gene Tree

Ldb2

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References

1 with disease annotations

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Phenotype Summary

1 phenotype from 1 allele in 1 genetic background
28 phenotype references

All Mutations and Alleles

10
Chemically induced (ENU)

1
Chemically induced (other)

2
Endonuclease-mediated

2
Radiation induced

2
Spontaneous

1
Targeted

2
Genomic Mutations

6 involving Ldb2
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

25 strains or lines available

Homozygous mutation of this gene results in no obvious phenotype.

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All GO Annotations

36
GO References

11

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

804
Tissues

93
cDNA Data

13
Literature Summary

45

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA LDB2

Xenbase ldb2

ZFIN ldb2a, ldb2b

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All Sequences

80
RefSeq

34
UniProt

2
CCDS

CCDS19271.1, CCDS80276.1, CCDS80278.1, CCDS84878.1

Ensembl

ENSMUSG00000039706 (Evidence)
NCBI Gene

16826

			Length	Strain/Species	Flank
genomic	ENSMUSG00000039706	Ensembl Gene Model \| MGI Sequence Detail	327549	C57BL/6J	± kb
transcript	ENSMUST00000070748	Ensembl \| MGI Sequence Detail	2418	Not Applicable
polypeptide	ENSMUSP00000067737	Ensembl \| MGI Sequence Detail	373	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000009737 LIM domain-binding protein 2

(term hierarchy)
InterPro Domains

IPR029005 LIM-domain binding protein/SEUSS

IPR041363 LIM interaction domain

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All nucleic 18

Genomic 1

cDNA 14

Primer pair 1

Other 2

Microarray probesets 6

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MGI:2140800, MGI:2141166, MGI:894768

Summaries

All 101

Developmental Gene Expression 45

Diseases 1

Gene Ontology 11

Phenotypes 28
Earliest

J:5021 Batchelor AL, et al., A comparison of the mutagenic effectiveness of chronic neutron- and gamma-irradiation of mouse spermatogonia. Mutat Res. 1966 Jun;3(3):218-29
Latest

J:339946 Galazo MJ, et al., Tle4 controls both developmental acquisition and early post-natal maturation of corticothalamic projection neuron identity. Cell Rep. 2023 Aug 29;42(8):112957

TSS for Ldb2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr50901	Chr5:44957259-44957292 (-)	-254 bp
Tssr50900	Chr5:44957027-44957034 (-)	-9 bp
Tssr50899	Chr5:44956985-44957008 (-)	25 bp
Tssr1475	Chr5:44956932-44956939 (-)	86 bp
Tssr50898	Chr5:44939869-44939898 (-)	17,138 bp
Tssr50897	Chr5:44939823-44939835 (-)	17,193 bp
Tssr50896	Chr5:44934020-44934023 (-)	23,000 bp
Tssr50895	Chr5:44898565-44898569 (-)	58,455 bp
Tssr50894	Chr5:44805719-44805730 (-)	151,297 bp
Tssr50893	Chr5:44802291-44802292 (-)	154,730 bp
Tssr50892	Chr5:44791721-44791724 (-)	165,299 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 11/12/2024 MGI 6.24