Lig3 MGI Mouse Gene Detail - MGI:109152 - ligase III, DNA, ATP-dependent

Symbol

Lig3
Name

ligase III, DNA, ATP-dependent
Synonyms

D11Wsu78e

Feature Type

protein coding gene
IDs

MGI:109152
NCBI Gene: 16882
Alliance

gene page
Transcription Start Sites

4 TSS

Sequence Map

Chr11:82671977-82695100 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 50.23 cM, cytoband B5
Mapping Data

6 experiments

SNPs within 2kb

569 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_109152	protein coding gene	Chr11:82671934-82695100 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0018830	protein coding gene	Chr11:84055832-84078998 (+)
A/J	MGP_AJ_G0018797	protein coding gene	Chr11:80826133-80849299 (+)
AKR/J	MGP_AKRJ_G0018767	protein coding gene	Chr11:83251859-83275022 (+)
BALB/cJ	MGP_BALBcJ_G0018770	protein coding gene	Chr11:81227331-81250488 (+)
C3H/HeJ	MGP_C3HHeJ_G0018584	protein coding gene	Chr11:83288084-83311220 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0019222	protein coding gene	Chr11:86579481-86602643 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0016856	protein coding gene	Chr11:77790266-77813383 (+)
CAST/EiJ	MGP_CASTEiJ_G0018139	protein coding gene	Chr11:83870496-83894877 (+)
CBA/J	MGP_CBAJ_G0018555	protein coding gene	Chr11:90321280-90344446 (+)
DBA/2J	MGP_DBA2J_G0018663	protein coding gene	Chr11:80402180-80425451 (+)
FVB/NJ	MGP_FVBNJ_G0018652	protein coding gene	Chr11:79928222-79951388 (+)
LP/J	MGP_LPJ_G0018733	protein coding gene	Chr11:84574455-84597621 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0018679	protein coding gene	Chr11:90529934-90553100 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0019262	protein coding gene	Chr11:83510461-83533624 (+)
PWK/PhJ	MGP_PWKPhJ_G0017909	protein coding gene	Chr11:81222161-81245347 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0017700	protein coding gene	Chr11:83128546-83151823 (+)
WSB/EiJ	MGP_WSBEiJ_G0018191	protein coding gene	Chr11:83398562-83422286 (+)

Human Ortholog

LIG3, DNA ligase 3

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LIG3, DNA ligase 3
Synonyms

LIG2, LIG3alpha, MTDPS20
Links

HGNC:6600

NCBI Gene ID: 3980

neXtProt AC: NX_P49916

UniProt: P49916
Chr Location

17q12; chr17:34980512-35010872 (+) GRCh38

MGI Vertebrate Homology

Lig3 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: LIG3
Gene Tree

Lig3

Diseases

2 with human LIG3 associations

				Human Disease	Mouse Models
				mitochondrial DNA depletion syndrome 20 IDs mitochondrial DNA depletion syndrome 20 DOID:0070451 OMIM:619780
				pancreatic cancer IDs pancreatic cancer DOID:1793 DOID:14356 DOID:1797 DOID:3588 DOID:9859 ICD10CM:C25.0 ICD10CM:C25.1 ICD10CM:C25.2 ICD9CM:157.0 ICD9CM:157.1 ICD9CM:157.2 ICD9CM:157.8 KEGG:05212 MESH:D010190 NCI:C3305 ORDO:1333 ORDO:217074 UMLS_CUI:C0030297 UMLS_CUI:C0153458 UMLS_CUI:C0153459 UMLS_CUI:C0153460 UMLS_CUI:C0153463

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

28 phenotypes from 2 alleles in 3 genetic backgrounds
19 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

17
Chemically induced (other)

1
Gene trapped

12
Targeted

4
Genomic Mutations

2 involving Lig3
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

41 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Targeted inactivation of this gene causes embryonic growth arrest at 8.5 dpc, followed by excessive apoptosis at 9.5 dpc, and ultimately death, likely due to unrepaired DNA damage. Homozygous mutant cells display elevated sister chromatid exchange.

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All GO Annotations

37
GO References

12

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

729
Tissues

18
cDNA Data

20
Literature Summary

9

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase lig3

ZFIN lig3

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All Sequences

110
RefSeq

33
UniProt

8
CCDS

CCDS25147.1, CCDS70266.1

Ensembl

ENSMUSG00000020697 (Evidence)
NCBI Gene

16882

			Length	Strain/Species	Flank
genomic	16882	NCBI Gene Model \| MGI Sequence Detail	23124	C57BL/6J	± kb
transcript	NM_001403857	RefSeq \| MGI Sequence Detail	6168	ZRU/MplStud
polypeptide	P97386	UniProt \| EBI \| MGI Sequence Detail	1015	Not Applicable

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UniProt

8 Sequences
Protein Ontology

PR:000009801 DNA ligase 3

(term hierarchy)
EC

6.5.1.1
InterPro Domains

IPR050191 ATP-dependent DNA ligase

IPR001357 BRCT domain

IPR036420 BRCT domain superfamily

IPR031916 DNA ligase 3, BRCT domain

IPR000977 DNA ligase, ATP-dependent

IPR012310 DNA ligase, ATP-dependent, central

IPR016059 DNA ligase, ATP-dependent, conserved site

IPR012309 DNA ligase, ATP-dependent, C-terminal

IPR012308 DNA ligase, ATP-dependent, N-terminal

IPR036599 DNA ligase, ATP-dependent, N-terminal domain superfamily

IPR012340 Nucleic acid-binding, OB-fold

IPR001510 Zinc finger, PARP-type

IPR036957 Zinc finger, PARP-type superfamily
GlyGen

P97386 3 sites, 1 O-linked glycan (3 sites)

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All nucleic 27

Genomic 1

cDNA 21

Primer pair 5

Microarray probesets 10

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MGD-MRK-34045, MGD-MRK-38196, MGI:106353

Summaries

All 66

Developmental Gene Expression 9

Gene Ontology 12

Phenotypes 19
Earliest

J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
Latest

J:315842 Paes Dias M, et al., Loss of nuclear DNA ligase III reverts PARP inhibitor resistance in BRCA1/53BP1 double-deficient cells by exposing ssDNA gaps. Mol Cell. 2021 Nov 18;81(22):4692-4708.e9

TSS for Lig3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr103579	Chr11:82671970-82672050 (+)	33 bp
Tssr103580	Chr11:82672056-82672081 (+)	92 bp
Tssr103581	Chr11:82674157-82674168 (+)	2,186 bp
Tssr103582	Chr11:82676196-82676204 (+)	4,223 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 12/10/2024 MGI 6.24