Lig1 MGI Mouse Gene Detail - MGI:101789 - ligase I, DNA, ATP-dependent

Symbol

Lig1
Name

ligase I, DNA, ATP-dependent
Synonyms

LigI, mLigI

Feature Type

protein coding gene
IDs

MGI:101789
NCBI Gene: 16881
Alliance

gene page
Transcription Start Sites

9 TSS

Sequence Map

Chr7:13011239-13045350 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 7, 7.82 cM
Mapping Data

6 experiments

SNPs within 2kb

911 from dbSNP Build 142
Strain Annotations

18
RFLP

3

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_101789	protein coding gene	Chr7:13011101-13045351 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0031671	protein coding gene	Chr7:10671256-10707697 (+)
A/J	MGP_AJ_G0031645	protein coding gene	Chr7:10533641-10568664 (+)
AKR/J	MGP_AKRJ_G0031568	protein coding gene	Chr7:10779795-10813106 (+)
BALB/cJ	MGP_BALBcJ_G0031650	protein coding gene	Chr7:10617383-10651450 (+)
C3H/HeJ	MGP_C3HHeJ_G0031371	protein coding gene	Chr7:10924682-10958644 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0032114	protein coding gene	Chr7:11250726-11285636 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0029205	protein coding gene	Chr7:12368629-12404596 (+)
CAST/EiJ	MGP_CASTEiJ_G0030729	protein coding gene	Chr7:8394853-8433731 (+)
CBA/J	MGP_CBAJ_G0031329	protein coding gene	Chr7:11451630-11488287 (+)
DBA/2J	MGP_DBA2J_G0031487	protein coding gene	Chr7:10394323-10428333 (+)
FVB/NJ	MGP_FVBNJ_G0031443	protein coding gene	Chr7:10418722-10454593 (+)
LP/J	MGP_LPJ_G0031573	protein coding gene	Chr7:10781428-10816162 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0031478	protein coding gene	Chr7:11537214-11572351 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0032144	protein coding gene	Chr7:10547878-10584695 (+)
PWK/PhJ	MGP_PWKPhJ_G0030457	protein coding gene	Chr7:8861922-8896267 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0030283	protein coding gene	Chr7:6625472-6659336 (+)
WSB/EiJ	MGP_WSBEiJ_G0030824	protein coding gene	Chr7:10584061-10620923 (+)

Human Ortholog

LIG1, DNA ligase 1

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

LIG1, DNA ligase 1
Synonyms

hLig1, IMD96, LIGI
Links

HGNC:6598

NCBI Gene ID: 3978

neXtProt AC: NX_P18858

UniProt: P18858
Chr Location

19q13.33; chr19:48115445-48170603 (-) GRCh38

MGI Vertebrate Homology

Lig1 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: LIG1
Gene Tree

Lig1

Diseases

2 with human LIG1 associations

				Human Disease	Mouse Models
				inherited metabolic disorder IDs inherited metabolic disorder DOID:655 MESH:D008661 NCI:C34816 UMLS_CUI:C0025521
				primary immunodeficiency disease IDs primary immunodeficiency disease DOID:612 ICD10CM:D84.9 ICD9CM:279.3 KEGG:05340 MESH:D007153 NCI:C39725 OMIM:242850 OMIM:PS300755 UMLS_CUI:C0021051

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

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Phenotype Summary

35 phenotypes from 4 alleles in 4 genetic backgrounds
1 images
12 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

18
Chemically induced (ENU)

1
Endonuclease-mediated

3
Gene trapped

10
Targeted

4
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

48 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele exhibit impaired fetal hematopoiesis, develop anemia, and die by E16.5.

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All GO Annotations

24
GO References

10

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

940
Tissues

168
cDNA Data

14
Literature Summary

11

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase lig1

ZFIN lig1

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All Sequences

58
RefSeq

6
UniProt

6

Ensembl

ENSMUSG00000056394 (Evidence)
NCBI Gene

16881

			Length	Strain/Species	Flank
genomic	ENSMUSG00000056394	Ensembl Gene Model \| MGI Sequence Detail	34112	C57BL/6J	± kb
transcript	ENSMUST00000177588	Ensembl \| MGI Sequence Detail	3174	Not Applicable
polypeptide	ENSMUSP00000136972	Ensembl \| MGI Sequence Detail	916	Not Applicable

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UniProt

6 Sequences
Protein Ontology

PR:000009800 DNA ligase 1

(term hierarchy)
EC

6.5.1.1
InterPro Domains

IPR050191 ATP-dependent DNA ligase

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
GlyGen

P37913 1 site, 1 O-linked glycan (1 site)

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All nucleic 18

cDNA 15

Primer pair 3

Microarray probesets 4

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MGD-MRK-18597, MGI:2142100

Summaries

All 56

Developmental Gene Expression 11

Gene Ontology 10

Phenotypes 12
Earliest

J:19305 Savini E, et al., Cloning and sequence analysis of a cDNA coding for the murine DNA ligase I enzyme. Gene. 1994 Jul 8;144(2):253-7
Latest

J:340875 Zhou Z, et al., Fance deficiency inhibits primordial germ cell proliferation associated with transcription-replication conflicts accumulate and DNA repair defects. J Ovarian Res. 2023 Aug 10;16(1):160

TSS for Lig1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr64537	Chr7:13011081-13011140 (+)	-128 bp
Tssr64538	Chr7:13011180-13011196 (+)	-51 bp
Tssr64539	Chr7:13012470-13012491 (+)	1,242 bp
Tssr64540	Chr7:13012704-13012800 (+)	1,513 bp
Tssr64541	Chr7:13012802-13012826 (+)	1,575 bp
Tssr64542	Chr7:13019275-13019297 (+)	8,047 bp
Tssr64543	Chr7:13037118-13037142 (+)	25,891 bp
Tssr64544	Chr7:13043505-13043530 (+)	32,279 bp
Tssr64545	Chr7:13043542-13043551 (+)	32,308 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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