Lig4 (DNA ligase 4) - Rat Genome Database

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Gene: Lig4 (DNA ligase 4) Chinchilla lanigera
Analyze
Symbol: Lig4
Name: DNA ligase 4
RGD ID: 9028476
Description: ENCODES a protein that exhibits ATP binding (ortholog); DNA binding (ortholog); DNA ligase (ATP) activity (ortholog); INVOLVED IN cellular response to ionizing radiation (ortholog); cellular response to lithium ion (ortholog); central nervous system development (ortholog); PARTICIPATES IN non-homologous end joining pathway of double-strand break repair; ASSOCIATED WITH Anal Atresia, Hypospadias, and Penoscrotal Inversion (ortholog); colorectal cancer (ortholog); DNA ligase IV deficiency (ortholog); FOUND IN condensed chromosome (ortholog); cytoplasmic ribonucleoprotein granule (ortholog); DNA ligase IV complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: ligase IV, DNA, ATP-dependent
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554043,606,077 - 3,615,193 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554043,606,077 - 3,615,193 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISS annotations to Chinchilla, Squirrel, Bonobo and/or Dog genes from Human gene annotations
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline

Genomics

Comparative Map Data
Lig4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554043,606,077 - 3,615,193 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554043,606,077 - 3,615,193 (+)NCBIChiLan1.0ChiLan1.0
LIG4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3813108,207,442 - 108,218,349 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl13108,207,439 - 108,218,368 (-)EnsemblGRCh38hg38GRCh38
GRCh3713108,859,790 - 108,870,697 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3613107,657,791 - 107,668,717 (-)NCBINCBI36Build 36hg18NCBI36
Build 3413107,657,791 - 107,665,883NCBI
Celera1389,704,529 - 89,715,460 (-)NCBICelera
Cytogenetic Map13q33.3NCBI
HuRef1389,450,570 - 89,461,621 (-)NCBIHuRef
CHM1_113108,828,932 - 108,839,838 (-)NCBICHM1_1
T2T-CHM13v2.013107,433,544 - 107,444,540 (-)NCBIT2T-CHM13v2.0
Lig4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39810,020,020 - 10,027,680 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl810,019,049 - 10,027,686 (-)EnsemblGRCm39 Ensembl
GRCm3889,970,020 - 9,977,680 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl89,969,049 - 9,977,686 (-)EnsemblGRCm38mm10GRCm38
MGSCv3789,970,020 - 9,976,323 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3689,969,992 - 9,976,295 (-)NCBIMGSCv36mm8
Celera810,145,430 - 10,151,733 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
Lig4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21679,518,393 - 79,526,956 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1679,518,312 - 79,527,040 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1684,798,850 - 84,805,611 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01688,251,496 - 88,258,257 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01683,493,568 - 83,499,498 (+)NCBIRnor_WKY
Rnor_6.01685,331,771 - 85,339,496 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1685,331,866 - 85,337,769 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01684,770,824 - 84,778,539 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41684,881,880 - 84,888,448 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11684,871,561 - 84,874,322 (+)NCBI
Celera1677,305,627 - 77,312,388 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
LIG4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.113108,474,718 - 108,485,421 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13108,475,820 - 108,478,555 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01389,336,434 - 89,347,418 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
LIG4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12256,980,333 - 56,987,636 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2256,980,622 - 56,983,357 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2256,752,066 - 56,759,380 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02257,500,830 - 57,508,151 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2257,500,745 - 57,510,390 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12257,101,978 - 57,109,289 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02257,090,156 - 57,097,580 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02257,127,280 - 57,134,599 (-)NCBIUU_Cfam_GSD_1.0
Lig4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945192,083,762 - 192,090,382 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049364723,861,833 - 3,867,943 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LIG4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1175,537,036 - 75,547,716 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11175,537,027 - 75,547,711 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21182,953,056 - 82,962,185 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LIG4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1386,576,200 - 86,587,097 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl386,577,304 - 86,580,039 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604643,235,759 - 43,246,667 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lig4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247933,699,506 - 3,706,073 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247933,699,394 - 3,706,591 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000004841   ⟹   ENSCLAP00000004753
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554043,606,077 - 3,615,193 (+)Ensembl
RefSeq Acc Id: XM_005374013   ⟹   XP_005374070
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554043,606,077 - 3,615,193 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005374014   ⟹   XP_005374071
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554043,606,077 - 3,615,193 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013515840   ⟹   XP_013371294
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554043,606,077 - 3,615,193 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013515843   ⟹   XP_013371297
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554043,606,077 - 3,615,193 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013515847   ⟹   XP_013371301
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554043,606,077 - 3,615,193 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013515850   ⟹   XP_013371304
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554043,606,077 - 3,615,193 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_005374070   ⟸   XM_005374013
- UniProtKB: A0A8C2UXW3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_005374071   ⟸   XM_005374014
- UniProtKB: A0A8C2UXW3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013371294   ⟸   XM_013515840
- UniProtKB: A0A8C2UXW3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013371301   ⟸   XM_013515847
- UniProtKB: A0A8C2UXW3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013371297   ⟸   XM_013515843
- UniProtKB: A0A8C2UXW3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013371304   ⟸   XM_013515850
- UniProtKB: A0A8C2UXW3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000004753   ⟸   ENSCLAT00000004841
Protein Domains
BRCT   DNA_LIGASE_A3


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000003376 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCLAP00000004753 ENTREZGENE
  ENSCLAP00000004753.1 UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000004841 ENTREZGENE
  ENSCLAT00000004841.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.3260.10 UniProtKB/TrEMBL
  2.40.50.140 UniProtKB/TrEMBL
  3.40.50.10190 UniProtKB/TrEMBL
InterPro Adenylation_DNA_ligase_IV UniProtKB/TrEMBL
  BRCT_dom UniProtKB/TrEMBL
  BRCT_dom_sf UniProtKB/TrEMBL
  DNA_ligase_ATP-dep UniProtKB/TrEMBL
  DNA_ligase_ATP-dep_C UniProtKB/TrEMBL
  DNA_ligase_ATP-dep_cent UniProtKB/TrEMBL
  DNA_ligase_ATP-dep_CS UniProtKB/TrEMBL
  DNA_ligase_ATP-dep_N UniProtKB/TrEMBL
  DNA_ligase_IV_dom UniProtKB/TrEMBL
  DNA_ligase_N_sf UniProtKB/TrEMBL
  LIG4 UniProtKB/TrEMBL
  NA-bd_OB-fold UniProtKB/TrEMBL
NCBI Gene Lig4 ENTREZGENE
PANTHER PTHR45997 UniProtKB/TrEMBL
Pfam BRCT_2 UniProtKB/TrEMBL
  DNA_ligase_A_C UniProtKB/TrEMBL
  DNA_ligase_A_M UniProtKB/TrEMBL
  DNA_ligase_A_N UniProtKB/TrEMBL
  DNA_ligase_IV UniProtKB/TrEMBL
PROSITE BRCT UniProtKB/TrEMBL
  DNA_LIGASE_A1 UniProtKB/TrEMBL
  DNA_LIGASE_A2 UniProtKB/TrEMBL
  DNA_LIGASE_A3 UniProtKB/TrEMBL
SMART BRCT UniProtKB/TrEMBL
Superfamily-SCOP SSF117018 UniProtKB/TrEMBL
  SSF50249 UniProtKB/TrEMBL
  SSF52113 UniProtKB/TrEMBL
TIGRFAMs dnl1 UniProtKB/TrEMBL
UniProt A0A8C2UXW3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Lig4  DNA ligase 4    ligase IV, DNA, ATP-dependent  Symbol and/or name change 5135510 APPROVED