Lysmd1 MGI Mouse Gene Detail - MGI:1919409 - LysM, putative peptidoglycan-binding, domain containing 1

Symbol

Lysmd1
Name

LysM, putative peptidoglycan-binding, domain containing 1
Synonyms

2610022K04Rik

Feature Type

protein coding gene
IDs

MGI:1919409
NCBI Gene: 217779
Alliance

gene page
Transcription Start Sites

1 TSS

Sequence Map

Chr3:95041399-95046829 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 3, 40.74 cM, cytoband F2
Mapping Data

3 experiments

SNPs within 2kb

208 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1919409	protein coding gene	Chr3:95041399-95046836 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0027571	protein coding gene	Chr3:95828774-95834267 (+)
A/J	MGP_AJ_G0027529	protein coding gene	Chr3:92873585-92880624 (+)
AKR/J	MGP_AKRJ_G0027496	protein coding gene	Chr3:95015431-95023491 (+)
BALB/cJ	MGP_BALBcJ_G0027541	protein coding gene	Chr3:92642206-92649994 (+)
C3H/HeJ	MGP_C3HHeJ_G0027274	protein coding gene	Chr3:95295710-95302962 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0027989	protein coding gene	Chr3:99394093-99401716 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0025329	protein coding gene	Chr3:89234306-89239922 (+)
CAST/EiJ	MGP_CASTEiJ_G0026724	protein coding gene	Chr3:94582000-94587419 (+)
CBA/J	MGP_CBAJ_G0027252	protein coding gene	Chr3:103001047-103006849 (+)
DBA/2J	MGP_DBA2J_G0027390	protein coding gene	Chr3:92165612-92173021 (+)
FVB/NJ	MGP_FVBNJ_G0027361	protein coding gene	Chr3:90235688-90241118 (+)
LP/J	MGP_LPJ_G0027499	protein coding gene	Chr3:97119473-97130412 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0027388	protein coding gene	Chr3:109126493-109132732 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0028043	protein coding gene	Chr3:94671266-94678105 (+)
PWK/PhJ	MGP_PWKPhJ_G0026452	protein coding gene	Chr3:92042246-92047673 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0026273	protein coding gene	Chr3:92966401-92971790 (+)
WSB/EiJ	MGP_WSBEiJ_G0026806	protein coding gene	Chr3:95055068-95060969 (+)

Human Ortholog

LYSMD1, LysM domain containing 1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LYSMD1, LysM domain containing 1
Synonyms

SB145
Links

HGNC:32070

NCBI Gene ID: 388695

neXtProt AC: NX_Q96S90

UniProt: Q96S90
Chr Location

1q21.3; chr1:151148496-151165948 (-) GRCh38

MGI Vertebrate Homology

Lysmd1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: LYSMD1
Gene Tree

Lysmd1

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References

1 with disease annotations

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Phenotype Summary

2 phenotypes from 1 allele in 1 genetic background
13 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

11
Chemically induced (other)

1
Endonuclease-mediated

1
Gene trapped

5
Radiation induced

1
Targeted

3
Genomic Mutations

2 involving Lysmd1
Incidental Mutations

CvDC
Find Mice (IMSR)

29 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

2
GO References

2

Molecular Function

No experimental evidence to support Molecular Function annotation, following literature review. See J:73796.

Biological Process

No experimental evidence to support Biological Process annotation, following literature review. See J:73796.

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

706
cDNA Data

8

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase lysmd1

ZFIN lysmd1

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All Sequences

36
RefSeq

2
UniProt

2
CCDS

CCDS17602.1

Ensembl

ENSMUSG00000053769 (Evidence)
NCBI Gene

217779

			Length	Strain/Species	Flank
genomic	ENSMUSG00000053769	Ensembl Gene Model \| MGI Sequence Detail	5431	C57BL/6J	± kb
transcript	ENSMUST00000066386	Ensembl \| MGI Sequence Detail	2394	Not Applicable
polypeptide	ENSMUSP00000067811	Ensembl \| MGI Sequence Detail	226	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000029615 LysM and putative peptidoglycan-binding domain-containing protein 1

(term hierarchy)
InterPro Domains

IPR045030 LysM and putative peptidoglycan-binding domain-containing protein 1-4

IPR018392 LysM domain

IPR036779 LysM domain superfamily

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All nucleic 9

cDNA 9

Microarray probesets 4

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MGI:2139696

Summaries

All 36

Diseases 1

Gene Ontology 2

Phenotypes 13
Earliest

J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Lysmd1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr968	Chr3:95045234-95045257 (+)	3,847 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)
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