Lig3 (DNA ligase 3) - Rat Genome Database

Name: Lig3
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Lig3 (DNA ligase 3) Ictidomys tridecemlineatus

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Symbol:

Lig3

Name:

DNA ligase 3

RGD ID:

12722924

Description:

ENCODES a protein that exhibits DNA ligase activity (ortholog); INVOLVED IN DNA ligation (ortholog); double-strand break repair via alternative nonhomologous end joining (ortholog); double-strand break repair via nonhomologous end joining (ortholog); PARTICIPATES IN nucleotide excision repair pathway; ASSOCIATED WITH Cardiac Arrhythmias (ortholog); genetic disease (ortholog); middle cerebral artery infarction (ortholog); FOUND IN condensed nuclear chromosome (ortholog); mitochondrion (ortholog); synaptonemal complex (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

DNA ligase 3, transcript variant X1; DNA ligase 3, transcript variant X2

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	LIG3 (DNA ligase 3)	NCBI	Ortholog
Mus musculus (house mouse):	Lig3 (ligase III, DNA, ATP-dependent)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Lig3 (DNA ligase 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Lig3 (DNA ligase 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LIG3 (DNA ligase 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LIG3 (DNA ligase 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LIG3 (DNA ligase 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LIG3 (DNA ligase 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Lig3 (DNA ligase 3)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	37,328,228 - 37,350,583 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936538	206,839 - 226,441 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936538	206,179 - 228,487 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Cardiac Arrhythmias (ISO)

genetic disease (ISO)

middle cerebral artery infarction (ISO)

mitochondrial DNA depletion syndrome 20 (ISO)

Neurodevelopmental Disorders (ISO)

pancreatic cancer (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

base-excision repair, DNA ligation (IEA)

DNA biosynthetic process (IEA)

DNA ligation (ISO)

DNA recombination (IEA)

DNA repair (IEA)

DNA replication (IEA)

double-strand break repair (IEA)

double-strand break repair via alternative nonhomologous end joining (ISO)

double-strand break repair via nonhomologous end joining (ISO)

lagging strand elongation (IEA)

mitochondrial DNA repair (ISO)

mitochondrion organization (ISO)

negative regulation of DNA recombination (ISO)

negative regulation of mitochondrial DNA replication (IEA)

V(D)J recombination (ISO)

Cellular Component

condensed nuclear chromosome (ISO)

DNA ligase III-XRCC1 complex (IEA)

mitochondrion (ISO)

nucleoplasm (IEA)

nucleus (IEA)

synaptonemal complex (ISO)

Molecular Function

ATP binding (IEA)

DNA binding (IEA)

DNA ligase (ATP) activity (IEA)

DNA ligase activity (IEA,ISO)

ligase activity (IEA)

metal ion binding (IEA)

protein binding (ISO)

zinc ion binding (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

nucleotide excision repair pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Lig3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	37,328,228 - 37,350,583 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936538	206,839 - 226,441 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936538	206,179 - 228,487 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LIG3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	17	34,980,512 - 35,010,872 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	17	34,980,512 - 35,009,743 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	17	33,307,531 - 33,336,762 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	30,331,651 - 30,356,201 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	17	30,331,696 - 30,355,936	NCBI
Celera	17	30,217,714 - 30,242,284 (+)	NCBI		Celera
Cytogenetic Map	17	q12	NCBI
HuRef	17	29,493,447 - 29,518,012 (+)	NCBI		HuRef
CHM1_1	17	33,371,911 - 33,396,481 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	17	35,928,368 - 35,957,659 (+)	NCBI		T2T-CHM13v2.0

Lig3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	82,671,977 - 82,695,100 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	11	82,671,934 - 82,695,100 (+)	Ensembl		GRCm39 Ensembl
GRCm38	11	82,781,109 - 82,804,274 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	82,781,108 - 82,804,274 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	82,594,637 - 82,617,776 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	11	82,597,330 - 82,620,469 (+)	NCBI		MGSCv36	mm8
Celera	11	92,400,612 - 92,423,646 (+)	NCBI		Celera
Cytogenetic Map	11	C	NCBI
cM Map	11	50.23	NCBI

Lig3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	10	68,215,371 - 68,238,705 (+)	NCBI		GRCr8
mRatBN7.2	10	67,717,808 - 67,741,141 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	10	67,717,812 - 67,798,414 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	10	72,337,877 - 72,361,210 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	10	71,843,252 - 71,866,586 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	10	67,305,075 - 67,328,397 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	10	70,134,734 - 70,158,051 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	70,134,729 - 70,158,055 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	69,765,441 - 69,788,758 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	71,000,287 - 71,021,398 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	10	71,013,909 - 71,035,020 (+)	NCBI
Celera	10	66,662,184 - 66,683,295 (+)	NCBI		Celera
Cytogenetic Map	10	q26	NCBI

Lig3
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955481	9,696,054 - 9,715,637 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955481	9,696,050 - 9,716,154 (+)	NCBI	ChiLan1.0	ChiLan1.0

LIG3
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	19	29,456,509 - 29,487,762 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	17	31,342,056 - 31,367,159 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	17	21,776,483 - 21,805,706 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	17	22,073,487 - 22,097,754 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	17	22,074,046 - 22,095,220 (-)	Ensembl	panpan1.1		panPan2

LIG3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	9	38,346,275 - 38,366,634 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	9	38,346,199 - 38,366,193 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	9	37,569,261 - 37,590,027 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	9	39,158,185 - 39,178,954 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	9	39,155,826 - 39,178,934 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	9	37,940,790 - 37,961,563 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	9	38,226,708 - 38,247,470 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	9	38,314,196 - 38,334,891 (-)	NCBI		UU_Cfam_GSD_1.0

LIG3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	12	40,153,397 - 40,183,622 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	40,153,105 - 40,205,077 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	12	41,714,491 - 41,773,847 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LIG3
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	16	28,487,953 - 28,511,945 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	16	28,490,434 - 28,511,130 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666075	1,476,469 - 1,500,221 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lig3
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624875	2,872,357 - 2,893,967 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624875	2,871,944 - 2,907,757 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005327765	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_013359798	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040269132	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000662	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000006090 ⟹ ENSSTOP00000005449

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936538	206,839 - 226,441 (-)	Ensembl

RefSeq Acc Id:

XM_005327765 ⟹ XP_005327822

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405602	37,328,228 - 37,350,583 (-)	NCBI
SpeTri2.0	NW_004936538	206,179 - 228,486 (-)	NCBI

Sequence:

show sequence

TGCCAGTGGGCTGCCTGCGGCCTGTGGGCGCCTGGTCCGGAGGCGAGTGGTGGTCGCTGGAGCC
GGGGAGGCAGCTATATGACTTTGGCCTTTAAGATCCTCTTCCCAAAAAACTTGTGTGCACTTGG
CCGAAGAGAACTGTGCCTGTTCCGAGAACAATATCACTGGCCTGACATAAGGAAATTCAGCCAG
TGCTTGGAAACAGATCTGCTACGTGGGCGTTGCCTCCTCCTGCGAAGAAAGCCTGTTCTGTCAT
TCCAGGGAGCCCATCTAAGACCACGTGCCACCTGCCTTGTTTTCTTGCCAGAGTCGCATGTGGG
ACTCTGCAGTAGCCCCTGTAAGATGGCCGAGCAACGGTTCTGTGTGGACTACGCCAAGCGCAGC
ACAGCCGGCTGCAAAAAATGCAAGGAGAAGATTGTGAAGGGCGTGTGCCGCATAGGCAAGGTGG
TACCCAATCCCTTCTCCGAGTCTGGGGGTGACATGAAAGAATGGTACCACATTAAGTGCATGTT
TGAGAAGCTGGAGAGGGCTCGGGCCACCACAAAAAAAATTGAAGACCTCACAGAGCTGGAAGGC
TGGGAAGAGCTGGAAGACAACGAGAAGGAACAGATCACCCAGCACATTGCAGATCTGTCTTCTA
AGGCAGCAGGCACACCAAAGAAGAAAGCTGTTGTGCAAGCTAAGTTGACAACAACTGGCCAGGT
GGCATCCCCAGGGAAAGGAGCGTCACTTGTCACCAACACCAATCCCCGAAAGTTTTCTGGCTTT
TCAGCCAAGCCCAACAACTCTAATCAAGCCCCCTCAAGCCCCACCCGCAAGACAAGTCTGTCCT
CAAGCAAATGTGACCCCAAGCACAAGGATTGTCTGCTACGGGAGTTCAGGAAGCTGTGTGCCAT
GGTGGCTGATAATCCTAGCTACAACACGAAGACCCAGATCATCCAGGACTTCTTGCGGAAAGGC
TCAGCAGGAGATGGTTTCCGGGGTGATGTGTACCTAACAGTGAAGCTGCTGCTGCCGGGTGTCA
TTAAGAGTGTTTACAACTTGAATGATAAGCAGATTGTGAAGCTTTTCAGCCGCATTTTTAACTG
TAACCCGGATGATATGGCACGGGACCTGGAGCAGGGTGACGTGTCAGAGACGATCAGAGTCTTC
TTTGAGCAGAGCAAGTCTTTCCCTCCAGCTGCCAAGAGCCTCCTCACCATCCAGGAAGTGGATG
AATTCCTCCTGCGGCTCTCGAAGCTCACCAAGGAGGATGAGCAGCAGCAGGCCCTGCAGGACAT
CGCCTCCAGGTGTACGGCCAATGACCTTAAGTGCATCATCAGGTTGATCAAACATGATCTGAAG
ATGAACTCAGGTGCAAAACATGTGTTAGATGCCCTCGACCCCAATGCCTATGAAGCCTTCAAAG
CTTCACGCAACCTGCAGGATGTAGTGGAGCGGGTCCTTCGCAATGAGCAGGAGGTGGAGAAGGA
TCCAGGACAGAGACGGGCTCTGAGTGTCCAGGCCTCGCTGATGACGCCTGTGCAGCCCATGCTG
GCCGAGGCCTGCAAGTCCATCGAGTATGCAATGAAGAAGTGTCCCAACGGCATGTTCTCTGAGA
TCAAGTATGATGGCGAGCGAGTTCAGGTGCATAAGAATGGGGACTACTTCAGCTACTTTAGCCG
CAGTCTCAAGCCTGTCCTGCCTCACAAGGTGGCCCACTTTAAGGACTACATCCCCAAGGCTTTT
CCTGGAGGCCACAGCATGATTTTGGACTCTGAGGTGCTCCTAATTGACAACAAGACAGGCAAAC
CACTGCCCTTTGGGACTCTAGGAGTGCACAAGAAAGCTGCTTTCCAAGATGCTAATGTCTGCCT
GTTTGTTTTTGATTGTATCTACTTTAATGATGTCAGCTTGATGGACAGGCCTCTGTGTGAGCGG
CGGAAGTTTCTTCATGACAACATGGTTGAAATTCCCAACCGGATCATGTTCTCAGAAATGAAGC
AAGTAACAAAAGCTTCAGACTTGGCTGATATGATAAACCGGGTGATCCGGGAGGGCTTGGAAGG
GCTGGTGCTGAAGGATGTAAAGGGTACATATGAGCCCGGAAAGCGGCACTGGCTGAAAGTGAAG
AAAGACTATTTGAATGAGGGGGCCATGGCTGATACAGCTGACCTGGTGGTTCTTGGGGCCTTCT
ATGGACAAGGAAGCAAAGGTGGTATGATGTCGATCTTCCTCATGGGCTGCTATGACCCTAGCAG
CCAGAAGTGGTGCACAGTCACAAAGTGTGCAGGAGGCCATGACGATGCAACCCTTGCCCGCCTA
CAGAAGGAACTGGACATGGTGAAGATCAGCAAGGATCCCAGCAAAATACCCTCCTGGCTGAAGA
TAAACAAGATCTACTATCCTGACTTCATCGTTCCAGACCCAAAGAAAGCTGCTGTATGGGAGAT
CACAGGGGCAGAATTCTCCAAATCTGAGGCTCACACCGCTGATGGGATATCCATCCGATTTCCC
CGCTGTACCCGAATCCGAGATGATAAGGACTGGAAATCTGCCACTAACCTCCCCCAACTCAAGG
AACTGTATCAGCTGTCCAAGGAGAAGGCCGACTTCACTGTGGTAGCTGGAGATGAGGGAAGCTC
CACTAAAGGAGGCAGCAATGGCGAGAACGAGGGCACTTCTGGGTCTGCTGCATCCCGCAAGGTC
CCCAGAGCCTCCCCCAACAAACCCTTTCCCAGTGCCCAGAAGGCTGAAGGGAAGCTGAGGATCC
CCAACAGCAAAGGCAATAAGCCTACCACAAAGTCTTCAGTGAAAGTTGGGGAGAAGAGGAAAGC
TACTGATGAGATGCCATACCAAGCAAAGGTGCTGCTGGACATCTTCACTGGGGTGCGGCTCCAC
TTGCCACCCTCCACCCCAGACTTCTGCCGTCTCAGACGCTACTTTGTGGCATTTGATGGGGACC
TAGTGCAGGAATTTGACATTGCCTCAGCCACACATGTGCTGGGTAGCAGGGACAAGAACCCTGA
GGCCCAGCTGGTCTCCCCAGAGTGGATTTGGGCATGTATACGAAAACGGAGGCTGGTAGCTCCC
TGCTAGGACTCAGGTCTTCCTGCCCCCTTGGGACATCTGCACCCTTACCACACTACTCTGCCAG
CCTTAGCCTGGTGGTAGGTAGGTGGAGGAACAGGGGGTTGTCCTTTCGTCTTCAGGCAGCAGTC
TTCCAAAATCTGCCAAGTCTTCATGGTCTCTTCTGGAGCAGGAATTATTTGCTGTGGGCACAAG
TCAATTTCTCTTGCTGTTTTAGATCTCATATCTGGGTGCTGGCTTTGTCATTTTTGTTTTCTTC
AAAAAGCTGAGTTATTTTTATAAATGAAACAACCTGCAGCATCTGTCCTTCCCCCACCATTCCC
TTAGTTTCCTTAGTGGTCAAGGAGTGAAGGCTGGGCTACTAAAGCTGGCGGCAGACTTCTCGCT
GCCTCATTTTACTTCCATTCCTTTTAAAGCTGTATTTAAAAGACCACCCCAAGAAATGCATCTT
ACATTTGGCAAAACTTAACTATCTTTTGAAAGAGAACAAAATTAATTTTGATGACTTTATTCTC
CATGTTCTCTATTACAGGGGAAGGACTAGGATTGGGTGGAAATGAGGCCTGTGTATGGGGAGGG
AGGTTATTTGGGCTACTAGGGTGGGGTTATAGAGGCTCCAAAAAGATCAACCTGCCTTCTCAAA
ATCTGGAAATAAATGCCTTTTAAGAA

hide sequence

RefSeq Acc Id:

XM_013359798 ⟹ XP_013215252

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405602	37,329,859 - 37,350,583 (-)	NCBI
SpeTri2.0	NW_004936538	207,227 - 228,487 (-)	NCBI

Sequence:

show sequence

CTGCCAGTGGGCTGCCTGCGGCCTGTGGGCGCCTGGTCCGGAGGCGAGTGGTGGTCGCTGGAGC
CGGGGAGGCAGCTATATGACTTTGGCCTTTAAGATCCTCTTCCCAAAAAACTTGTGTGCACTTG
GCCGAAGAGAACTGTGCCTGTTCCGAGAACAATATCACTGGCCTGACATAAGGAAATTCAGCCA
GTGCTTGGAAACAGATCTGCTACGTGGGCGTTGCCTCCTCCTGCGAAGAAAGCCTGTTCTGTCA
TTCCAGGGAGCCCATCTAAGACCACGTGCCACCTGCCTTGTTTTCTTGCCAGAGTCGCATGTGG
GACTCTGCAGTAGCCCCTGTAAGATGGCCGAGCAACGGTTCTGTGTGGACTACGCCAAGCGCAG
CACAGCCGGCTGCAAAAAATGCAAGGAGAAGATTGTGAAGGGCGTGTGCCGCATAGGCAAGGTG
GTACCCAATCCCTTCTCCGAGTCTGGGGGTGACATGAAAGAATGGTACCACATTAAGTGCATGT
TTGAGAAGCTGGAGAGGGCTCGGGCCACCACAAAAAAAATTGAAGACCTCACAGAGCTGGAAGG
CTGGGAAGAGCTGGAAGACAACGAGAAGGAACAGATCACCCAGCACATTGCAGATCTGTCTTCT
AAGGCAGCAGGCACACCAAAGAAGAAAGCTGTTGTGCAAGCTAAGTTGACAACAACTGGCCAGG
TGGCATCCCCAGGGAAAGGAGCGTCACTTGTCACCAACACCAATCCCCGAAAGTTTTCTGGCTT
TTCAGCCAAGCCCAACAACTCTAATCAAGCCCCCTCAAGCCCCACCCGCAAGACAAGTCTGTCC
TCAAGCAAATGTGACCCCAAGCACAAGGATTGTCTGCTACGGGAGTTCAGGAAGCTGTGTGCCA
TGGTGGCTGATAATCCTAGCTACAACACGAAGACCCAGATCATCCAGGACTTCTTGCGGAAAGG
CTCAGCAGGAGATGGTTTCCGGGGTGATGTGTACCTAACAGTGAAGCTGCTGCTGCCGGGTGTC
ATTAAGAGTGTTTACAACTTGAATGATAAGCAGATTGTGAAGCTTTTCAGCCGCATTTTTAACT
GTAACCCGGATGATATGGCACGGGACCTGGAGCAGGGTGACGTGTCAGAGACGATCAGAGTCTT
CTTTGAGCAGAGCAAGTCTTTCCCTCCAGCTGCCAAGAGCCTCCTCACCATCCAGGAAGTGGAT
GAATTCCTCCTGCGGCTCTCGAAGCTCACCAAGGAGGATGAGCAGCAGCAGGCCCTGCAGGACA
TCGCCTCCAGGTGTACGGCCAATGACCTTAAGTGCATCATCAGGTTGATCAAACATGATCTGAA
GATGAACTCAGGTGCAAAACATGTGTTAGATGCCCTCGACCCCAATGCCTATGAAGCCTTCAAA
GCTTCACGCAACCTGCAGGATGTAGTGGAGCGGGTCCTTCGCAATGAGCAGGAGGTGGAGAAGG
ATCCAGGACAGAGACGGGCTCTGAGTGTCCAGGCCTCGCTGATGACGCCTGTGCAGCCCATGCT
GGCCGAGGCCTGCAAGTCCATCGAGTATGCAATGAAGAAGTGTCCCAACGGCATGTTCTCTGAG
ATCAAGTATGATGGCGAGCGAGTTCAGGTGCATAAGAATGGGGACTACTTCAGCTACTTTAGCC
GCAGTCTCAAGCCTGTCCTGCCTCACAAGGTGGCCCACTTTAAGGACTACATCCCCAAGGCTTT
TCCTGGAGGCCACAGCATGATTTTGGACTCTGAGGTGCTCCTAATTGACAACAAGACAGGCAAA
CCACTGCCCTTTGGGACTCTAGGAGTGCACAAGAAAGCTGCTTTCCAAGATGCTAATGTCTGCC
TGTTTGTTTTTGATTGTATCTACTTTAATGATGTCAGCTTGATGGACAGGCCTCTGTGTGAGCG
GCGGAAGTTTCTTCATGACAACATGGTTGAAATTCCCAACCGGATCATGTTCTCAGAAATGAAG
CAAGTAACAAAAGCTTCAGACTTGGCTGATATGATAAACCGGGTGATCCGGGAGGGCTTGGAAG
GGCTGGTGCTGAAGGATGTAAAGGGTACATATGAGCCCGGAAAGCGGCACTGGCTGAAAGTGAA
GAAAGACTATTTGAATGAGGGGGCCATGGCTGATACAGCTGACCTGGTGGTTCTTGGGGCCTTC
TATGGACAAGGAAGCAAAGGTGGTATGATGTCGATCTTCCTCATGGGCTGCTATGACCCTAGCA
GCCAGAAGTGGTGCACAGTCACAAAGTGTGCAGGAGGCCATGACGATGCAACCCTTGCCCGCCT
ACAGAAGGAACTGGACATGGTGAAGATCAGCAAGGATCCCAGCAAAATACCCTCCTGGCTGAAG
ATAAACAAGATCTACTATCCTGACTTCATCGTTCCAGACCCAAAGAAAGCTGCTGTATGGGAGA
TCACAGGGGCAGAATTCTCCAAATCTGAGGCTCACACCGCTGATGGGATATCCATCCGATTTCC
CCGCTGTACCCGAATCCGAGATGATAAGGACTGGAAATCTGCCACTAACCTCCCCCAACTCAAG
GAACTGTATCAGCTGTCCAAGGAGAAGGCCGACTTCACTGTGGTAGCTGGAGATGAGGGAAGCT
CCACTAAAGGAGGCAGCAATGGCGAGAACGAGGGCACTTCTGGGTCTGCTGCATCCCGCAAGGT
CCCCAGAGCCTCCCCCAACAAACCCTTTCCCAGTGCCCAGAAGGCTGAAGGGAAGCTGAGGATC
CCCAACAGCAAAGGCAATAAGCCTACCACAAAGTCTTCAGTGAAAGTTGGGGAGAAGAGGAAAG
CTACTGATGAGATGCCATACCAAGCAAAGAGGCGGCCAGCCAGCCGGCAGAGAGGAAGGAGAGC
TGTACCAGCAGGCAGGAGATAGAGCCCAGCTGCCAGTCCCCAGTCAAATTTACATTAAAGGGGA
GAAAGCCCAGTCTGGGTGTGGGGTGCAGCGTGAGTCTGTGGTTGGGGGAGCAGGTCCAGCCAGC
AAGGAGGGAGAGTGCACTGCTTTGATGACTTTTCCCTTTATGCTGTCAGTCTTGTTTGGCAACA
TCTGTTGAGCGCCTGCTGAGGCCAGGAGCTGGGTTAGCACTGGCTCAACCCTGAGGAACTGCTG
GCCCAAGGGGTGGAGGGAGAAGTAAAGCTAATCCCTAGAATGATTGTGCCCCACCCAAGAGAAG
CACAGAAGTCTTGACAACTCATAGCCTGAACCCAGTTCCCAGCAGACTAGTAGAAACCATTTCC
TTCTCTTCTCCCTTCCTTGAAGCCCTTGAACCTATGCATAGTAATGAGCAAGACTACTGACCCT
GCAGTCTACCCACCTGTGCAGTGGACTGTGATCTTAAGGGGAGGTCATTGAGTCACAGCCACTG
GTTGGCTCCTGGAGACACATCCTTTTCCCATATCTAGGTCCCAAATGTTGGAACCCATCTCCTC
CTCCTCATCACCTGGCAGGGAAGGGAAGAATGTCAGGCCTGTGTCATCCAGAGTGACTGGAGGA
TGGGGGGGGGGGGAT

hide sequence

RefSeq Acc Id:

XM_040269132 ⟹ XP_040125066

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405602	37,330,755 - 37,350,583 (-)	NCBI

Protein Sequences


Protein RefSeqs	XP_005327822	(Get FASTA)	NCBI Sequence Viewer
	XP_013215252	(Get FASTA)	NCBI Sequence Viewer
	XP_040125066	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000005449.3
GenBank Protein	KAG3269498	(Get FASTA)	NCBI Sequence Viewer
	KAG3269499	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005327822 ⟸ XM_005327765
- Peptide Label:	isoform X1
- UniProtKB:	I3M790 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTLAFKILFPKNLCALGRRELCLFREQYHWPDIRKFSQCLETDLLRGRCLLLRRKPVLSFQGAH LRPRATCLVFLPESHVGLCSSPCKMAEQRFCVDYAKRSTAGCKKCKEKIVKGVCRIGKVVPNPF SESGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDNEKEQITQHIADLSSKAAGT PKKKAVVQAKLTTTGQVASPGKGASLVTNTNPRKFSGFSAKPNNSNQAPSSPTRKTSLSSSKCD PKHKDCLLREFRKLCAMVADNPSYNTKTQIIQDFLRKGSAGDGFRGDVYLTVKLLLPGVIKSVY NLNDKQIVKLFSRIFNCNPDDMARDLEQGDVSETIRVFFEQSKSFPPAAKSLLTIQEVDEFLLR LSKLTKEDEQQQALQDIASRCTANDLKCIIRLIKHDLKMNSGAKHVLDALDPNAYEAFKASRNL QDVVERVLRNEQEVEKDPGQRRALSVQASLMTPVQPMLAEACKSIEYAMKKCPNGMFSEIKYDG ERVQVHKNGDYFSYFSRSLKPVLPHKVAHFKDYIPKAFPGGHSMILDSEVLLIDNKTGKPLPFG TLGVHKKAAFQDANVCLFVFDCIYFNDVSLMDRPLCERRKFLHDNMVEIPNRIMFSEMKQVTKA SDLADMINRVIREGLEGLVLKDVKGTYEPGKRHWLKVKKDYLNEGAMADTADLVVLGAFYGQGS KGGMMSIFLMGCYDPSSQKWCTVTKCAGGHDDATLARLQKELDMVKISKDPSKIPSWLKINKIY YPDFIVPDPKKAAVWEITGAEFSKSEAHTADGISIRFPRCTRIRDDKDWKSATNLPQLKELYQL SKEKADFTVVAGDEGSSTKGGSNGENEGTSGSAASRKVPRASPNKPFPSAQKAEGKLRIPNSKG NKPTTKSSVKVGEKRKATDEMPYQAKVLLDIFTGVRLHLPPSTPDFCRLRRYFVAFDGDLVQEF DIASATHVLGSRDKNPEAQLVSPEWIWACIRKRRLVAPC hide sequence

RefSeq Acc Id:	XP_013215252 ⟸ XM_013359798
- Peptide Label:	isoform X2
- UniProtKB:	I3M790 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTLAFKILFPKNLCALGRRELCLFREQYHWPDIRKFSQCLETDLLRGRCLLLRRKPVLSFQGAH LRPRATCLVFLPESHVGLCSSPCKMAEQRFCVDYAKRSTAGCKKCKEKIVKGVCRIGKVVPNPF SESGGDMKEWYHIKCMFEKLERARATTKKIEDLTELEGWEELEDNEKEQITQHIADLSSKAAGT PKKKAVVQAKLTTTGQVASPGKGASLVTNTNPRKFSGFSAKPNNSNQAPSSPTRKTSLSSSKCD PKHKDCLLREFRKLCAMVADNPSYNTKTQIIQDFLRKGSAGDGFRGDVYLTVKLLLPGVIKSVY NLNDKQIVKLFSRIFNCNPDDMARDLEQGDVSETIRVFFEQSKSFPPAAKSLLTIQEVDEFLLR LSKLTKEDEQQQALQDIASRCTANDLKCIIRLIKHDLKMNSGAKHVLDALDPNAYEAFKASRNL QDVVERVLRNEQEVEKDPGQRRALSVQASLMTPVQPMLAEACKSIEYAMKKCPNGMFSEIKYDG ERVQVHKNGDYFSYFSRSLKPVLPHKVAHFKDYIPKAFPGGHSMILDSEVLLIDNKTGKPLPFG TLGVHKKAAFQDANVCLFVFDCIYFNDVSLMDRPLCERRKFLHDNMVEIPNRIMFSEMKQVTKA SDLADMINRVIREGLEGLVLKDVKGTYEPGKRHWLKVKKDYLNEGAMADTADLVVLGAFYGQGS KGGMMSIFLMGCYDPSSQKWCTVTKCAGGHDDATLARLQKELDMVKISKDPSKIPSWLKINKIY YPDFIVPDPKKAAVWEITGAEFSKSEAHTADGISIRFPRCTRIRDDKDWKSATNLPQLKELYQL SKEKADFTVVAGDEGSSTKGGSNGENEGTSGSAASRKVPRASPNKPFPSAQKAEGKLRIPNSKG NKPTTKSSVKVGEKRKATDEMPYQAKRRPASRQRGRRAVPAGRR hide sequence

RefSeq Acc Id:	XP_040125066 ⟸ XM_040269132
- Peptide Label:	isoform X3
- UniProtKB:	I3M790 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSSTOP00000005449 ⟸ ENSSTOT00000006090

Protein Domains

ATP-dependent DNA ligase family profile BRCT PARP-type

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000006065	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000006090.3	UniProtKB/TrEMBL
Gene3D-CATH	1.10.3260.10	UniProtKB/TrEMBL
	2.40.50.140	UniProtKB/TrEMBL
	3.30.1490.70	UniProtKB/TrEMBL
	3.30.1740.10	UniProtKB/TrEMBL
	3.40.50.10190	UniProtKB/TrEMBL
	DNA ligase/mRNA capping enzyme	UniProtKB/TrEMBL
InterPro	ATP-dep_DNA_ligase	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_N_sf	UniProtKB/TrEMBL
	LIG3_BRCT	UniProtKB/TrEMBL
	NA-bd_OB-fold	UniProtKB/TrEMBL
	Znf_PARP	UniProtKB/TrEMBL
	Znf_PARP_sf	UniProtKB/TrEMBL
NCBI Gene	Lig3	ENTREZGENE
PANTHER	DNA LIGASE 1/3 FAMILY MEMBER	UniProtKB/TrEMBL
	DNA LIGASE 3	UniProtKB/TrEMBL
Pfam	DNA_ligase_A_C	UniProtKB/TrEMBL
	DNA_ligase_A_M	UniProtKB/TrEMBL
	DNA_ligase_A_N	UniProtKB/TrEMBL
	LIG3_BRCT	UniProtKB/TrEMBL
	zf-PARP	UniProtKB/TrEMBL
PROSITE	BRCT	UniProtKB/TrEMBL
	DNA_LIGASE_A1	UniProtKB/TrEMBL
	DNA_LIGASE_A2	UniProtKB/TrEMBL
	DNA_LIGASE_A3	UniProtKB/TrEMBL
	PARP_ZN_FINGER_1	UniProtKB/TrEMBL
	PARP_ZN_FINGER_2	UniProtKB/TrEMBL
SMART	BRCT	UniProtKB/TrEMBL
	zf-PARP	UniProtKB/TrEMBL
Superfamily-SCOP	DNA ligase/mRNA capping enzyme, catalytic domain	UniProtKB/TrEMBL
	Glucocorticoid receptor-like (DNA-binding domain)	UniProtKB/TrEMBL
	SSF117018	UniProtKB/TrEMBL
	SSF50249	UniProtKB/TrEMBL
	SSF52113	UniProtKB/TrEMBL
UniProt	I3M790	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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