XLOC_002436 (xrcc4)


Basic Information

Item Value
gene id XLOC_002436
gene name xrcc4
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 43088270 ~ 43184354 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00004571
TTTTAGCATAGTAGTAGTAGCTAGCAAAGCTTTGCATGCTGATTCTGTTAAAATGCCCCCCCTAGGTTTGGATCACAACACAGGGAAGTCGTATATGTCCCATATGGAGACAATCAGAAACTAGCAGAGCTGACATACAGCCGGATTAACATGGAAAAGGCACAGGAAGGACAACTCAGGTGTCGCAGCAGTAGTGTGCGTCAGATCTCCATCTCCTCTGAGCCTCAGCGCTGTTTCTTCCTCAAGTTGGAATGGGCTGAAGATCTCGGCTCCGGCTTCGTCATCTTTCTGTGTGATGGGGAATCTGCCTGGAGCGGTGAAGTTTCCGAGGAGGACGTGTCGCGGGAGGCTCGTGAGATGGAGATGGAGCGTGATCGGTATGTCTGTGACCTGCAGCTGGCCCTGACCGGAGCACCATCAGGATCTGGAGCTTCAGATGAGGGTGAATTTACCTTCCAGCTGACACCTGAGCGGCCCGGACGACCCCAACTGCAGCTGTCTTATGAGAAGGTGCAGAAGGACATCTCGTTCAGGCTGGGCGTGGTGGATCTGCAGCCGGTGCCGGAGCCCACTGAAGTCATCCGGGAGCTCATTACTCACGGCCTGGAGCAAAGCTCACGTCTTCAGGCCTCAAACCAGCACCTGTTGGAGGAGAACCAGAAGCTGAGGAGAGAACAGCAGCACATCACTGAAGAGATGGAACGATACGTGAAGGGAAAGGAGGCGTTAGAGAGAGACCTGTACAGCCGCTTTGTGCTGGTCCTCAATGAGAAGAAAGCCAAACTCCGAGCCCTGCAGCAGAGGGTCCGAGAGCTGGAGGAGGCTGAGGAGGAGAGATCACCGAGAAAGAAAAAGGCAGATAGTGAAGATCATGAAGCGGTGGAGGCGGCAGCAGATAAGAGTCCTGATGAAGAGAGTGATTATGGAGGAAGTACGGAAGATGAACAGGAAGCAGAACCCAAACGCCTCGACCCAAAACCTCCTACAGAAGAGATGCCAGAATGCAGCCCGATGGATGACAGTCTGAATGACATCACAGACGTGGCTCCGTGCCGTAAACGCCGCCATCGGCACCTGCAGCAACTCGAGGCTCAAGCCAAACGCAAAACGCTGGAGCAGCAGCACAGATCCAGAGAGAAGCCGGTGGAAGAAACCAAAGCTGCGACCAGCAGAACGTCAAGTGTCCCGGTGAAGCCTGCAAACACTGCTGCAAACCTTGATCCAGATGAGCTGTTTGATGATATATGACGCTCTAATGATGAGCATGACTACTGTTTTTAAACTAGAGGAgaaataaaattgtcattttaaaagtattttatagtCTAACCCTGCTACAATATTACGTTTAAAGAAGGAACACTATTTTTGTAACAACAGTACAATGTTTAATGAAGATGTAAGGTGTTGATAAAGATAATAAATGTGGATGAGGttgttttttgtctcttttttgctAAGTAGGGatcttaatttgatttaaaatgcatttacatcTCAACAGCTAGGTTTTCAACTTGCATGGATTATTTCATTTGTTTACTCCTGCTGggttcaaaacaaatgcaaattcaattatgCATGTTTTTTACATACTATAAAAGAAATTTCCAGGCGTGCAACAAATGaccaggttcgagtccggggaagagcggttccagaaatcaggtaagacaaaaacagaatccaaaaaataaagtgaacgagttcataacagggtgagaacgtagTAAAATCCCAAAACgcggcaaaaaataaaatcatacgagggcttttcttttttttggaaagcttttctaaattgttgctcag
>TCONS_00004572
AGAAGCGCGAAAAGCTCAATGGGACAGGGAAGTGACAGCAAGTTCAGCAGCAGCAGGAGTATTCCAGTCTGATTTAAAGCTCCTTTTTAAATACACCACTTAACTTTCCTCGCGGAATGAGGTGTCGCAGCAGTAGTGTGCGTCAGATCTCCATCTCCTCTGAGCCTCAGCGCTGTTTCTTCCTCAAGTTGGAATGGGCTGAAGATCTCGGCTCCGGCTTCGTCATCTTTCTGTGTGATGGGGAATCTGCCTGGAGCGGTGAAGTTTCCGAGGAGGACGTGTCGCGGGAGGCTCGTGAGATGGAGATGGAGCGTGATCGGTATGTCTGTGACCTGCAGCTGGCCCTGACCGGAGCACCATCAGGATCTGGAGCTTCAGATGAGGGTGAATTTACCTTCCAGCTGACACCTGAGCGGCCCGGACGACCCCAACTGCAGCTGTCTTATGAGAAGGTGCAGAAGGACATCTCGTTCAGGCTGGGCGTGGTGGATCTGCAGCCGGTGCCGGAGCCCACTGAAGTCATCCGGGAGCTCATTACTCACGGCCTGGAGCAAAGCTCACGTCTTCAGGCCTCAAACCAGCACCTGTTGGAGGAGAACCAGAAGCTGAGGAGAGAACAGCAGCACATCACTGAAGAGATGGAACGATACGTGAAGGGAAAGGAGGCGTTAGAGAGAGACCTGTACAGCCGCTTTGTGCTGGTCCTCAATGAGAAGAAAGCCAAACTCCGAGCCCTGCAGCAGAGGGTCCGAGAGCTGGAGGAGGCTGAGGAGGAGAGATCACCGAGAAAGAAAAAGGCAGATAGTGAAGATCATGAAGCGGTGGAGGCGGCAGCAGATAAGAGTCCTGATGAAGAGAGTGATTATGGAGGAAGTACGGAAGATGAACAGGAAGCAGAACCCAAACGCCTCGACCCAAAACCTCCTACAGAAGAGATGCCAGAATGCAGCCCGATGGATGACAGTCTGAATGACATCACAGACGTGGCTCCGTGCCGTAAACGCCGCCATCGGCACCTGCAGCAACTCGAGGCTCAAGCCAAACGCAAAACGCTGGAGCAGCAGCACAGATCCAGAGAGAAGCCGGTGGAAGAAACCAAAGCTGCGACCAGCAGAACGTCAAGTGTCCCGGTGAAGCCTGCAAACACTGCTGCAAACCTTGATCCAGATGAGCTGTTTGATGATATATGACGCTCTAATGATGAGCATGACTACTGTTTTTAAACTAGAGGAgaaataaaattgtcattttaaaagtattttatagtCTAACCCTGCTACAATATTACGTTTAAAGAAGGAACACTATTTTTGTAACAACAGTACAATGTTTAATGAAGATGTAAGGTGTTGATAAAGATAATAAATGTG
>TCONS_00004573
ATGAGCAGGTGTCGCAGCAGTAGTGTGCGTCAGATCTCCATCTCCTCTGAGCCTCAGCGCTGTTTCTTCCTCAAGTTGGAATGGGCTGAAGATCTCGGCTCCGGCTTCGTCATCTTTCTGTGTGATGGGGAATCTGCCTGGAGCGGTGAAGTTTCCGAGGAGGACGTGTCGCGGGAGGCTCGTGAGATGGAGATGGAGCGTGATCGGTATGTCTGTGACCTGCAGCTGGCCCTGACCGGAGCACCATCAGGATCTGGAGCTTCAGATGAGGGTGAATTTACCTTCCAGCTGACACCTGAGCGGCCCGGACGACCCCAACTGCAGCTGTCTTATGAGAAGGTGCAGAAGGACATCTCGTTCAGGCTGGGCGTGGTGGATCTGCAGCCGGTGCCGGAGCCCACTGAAGTCATCCGGGAGCTCATTACTCACGGCCTGGAGCAAAGCTCACGTCTTCAGGCCTCAAACCAGCACCTGTTGGAGGAGAACCAGAAGCTGAGGAGAGAACAGCAGCACATCACTGAAGAGATGGAACGATACGTGAAGGGAAAGGAGGCGTTAGAGAGAGACCTGTACAGCCGCTTTGTGCTGGTCCTCAATGAGAAGAAAGCCAAACTCCGAGCCCTGCAGCAGAGGGTCCGAGAGCTGGAGGAGGCTGAGGAGGAGAGATCACCGAGAAAGAAAAAGGCAGATAGTGAAGATCATGAAGCGGTGGAGGCGGCAGCAGATAAGAGTCCTGATGAAGAGAGTGATTATGGAGGAAGTACGGAAGATGAACAGGAAGCAGAACCCAAACGCCTCGACCCAAAACCTCCTACAGAAGAGATGCCAGAATGCAGCCCGATGGATGACAGTCTGAATGACATCACAGACGTGGCTCCGTGCCGTAAACGCCGCCATCGGCACCTGCAGCAACTCGAGGCTCAAGCCAAACGCAAAACGCTGGAGCAGCAGCACAGATCCAGAGAGAAGCCGGTGGAAGAAACCAAAGCTGCGACCAGCAGAACGTCAAGTGTCCCGGTGAAGCCTGCAAACACTGCTGCAAACCTTGATCCAGATGAGCTGTTTGATGATATATGACGCTCTAATGATGAGCATGACTACTGTTTTTAAACTAGAGGAgaaataaaattgtcattttaaaagtattttatagtCTAACCCTGCTACAATATTACGTTTAAAGAAGGAACACTATTTTTGTAACAACAGTACAATGTTTAATGAAGATGTAAGGTGTTGATAAAGATAATAAATGTGGATGAGGttgttttttgtctcttttttgctAAGTAGGGatcttaatttgatttaaaatgcatttacatcTCAACAGCTAGGTTTTCAACTTGCATGGATTATTTCATTTGTTTACTCCTGCTGggttcaaaacaaatgcaaattcaattatgCATGTTTTTTACATACTATAAAAGAAATTTCCAGGCGTGCAACAAATGaccaggttcgagtccggggaagagcggttccagaaatcaggtaagacaaaaacagaatccaaaaaataaagtgaacgagttcataacagggtgagaacgtagTAAAATCCCAAAACgcggcaaaaaataaaatcatacgagggcttttcttttttttggaaagcttttctaaattgttgctcag

Function

symbol description
xrcc4 Predicted to enable DNA binding activity. Predicted to be involved in DNA metabolic process; positive regulation of ligase activity; and response to X-ray. Predicted to act upstream of or within DNA recombination and double-strand break repair. Predicted to be located in nucleus. Predicted to be part of DNA ligase IV complex and DNA-dependent protein kinase-DNA ligase 4 complex. Human ortholog(s) of this gene implicated in multiple myeloma. Orthologous to human XRCC4 (X-ray repair cross complementing 4).

GO:

id name namespace
GO:0006302 double-strand break repair biological_process
GO:0006303 double-strand break repair via nonhomologous end joining biological_process
GO:0006310 DNA recombination biological_process
GO:0033152 immunoglobulin V(D)J recombination biological_process
GO:0010165 response to X-ray biological_process
GO:0051351 positive regulation of ligase activity biological_process
GO:0051103 DNA ligation involved in DNA repair biological_process
GO:0005634 nucleus cellular_component
GO:0005958 DNA-dependent protein kinase-DNA ligase 4 complex cellular_component
GO:0032807 DNA ligase IV complex cellular_component
GO:0003677 DNA binding molecular_function

KEGG:

id description
ko03450 Non-homologous end-joining
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-040426-1755 Predicted to enable DNA binding activity. Predicted to be involved in DNA metabolic process; positive regulation of ligase activity; and response to X-ray. Predicted to act upstream of or within DNA recombination and double-strand break repair. Predicted to be located in nucleus. Predicted to be part of DNA ligase IV complex and DNA-dependent protein kinase-DNA ligase 4 complex. Human ortholog(s) of this gene implicated in multiple myeloma. Orthologous to human XRCC4 (X-ray repair cross complementing 4).

Ensembl:

ensembl_id ENSDARG00000010732

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00004571 False 1812 mRNA 0.47 8 43088270 43184354
TCONS_00004572 False 1370 mRNA 0.51 8 43117661 43183970
TCONS_00004573 True 1641 mRNA 0.48 8 43117777 43184354

Neighbor

gene id symbol gene type direction distance location
XLOC_002435 atg10 coding upstream 12063 43037064 ~ 43076207 (+)
XLOC_002434 zcchc9 coding upstream 184554 42898103 ~ 42903716 (+)
XLOC_002433 NA coding upstream 267364 42819726 ~ 42820906 (+)
XLOC_002432 NA coding upstream 342690 42741085 ~ 42745580 (+)
XLOC_002431 CABZ01063556.1 coding upstream 347608 42733210 ~ 42740662 (+)
XLOC_002437 vcanb coding downstream 4324 43188678 ~ 43263885 (+)
XLOC_002438 rasa1b coding downstream 222442 43406796 ~ 43450588 (+)
XLOC_002439 NA coding downstream 334240 43518594 ~ 43525213 (+)
XLOC_002440 nr2f1b coding downstream 612776 43797130 ~ 43808197 (+)
XLOC_002441 NA coding downstream 643973 43828327 ~ 43938288 (+)
XLOC_002430 NA non-coding upstream 356276 42729946 ~ 42731994 (+)
XLOC_002429 NA non-coding upstream 365049 42720841 ~ 42723221 (+)
XLOC_002424 NA non-coding upstream 611011 42470616 ~ 42477259 (+)
XLOC_002442 CR384089.1 non-coding downstream 808998 43993352 ~ 44024651 (+)
XLOC_002445 NA non-coding downstream 871395 44055749 ~ 44198211 (+)
XLOC_002447 NA non-coding downstream 1196628 44380982 ~ 44383459 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000158_01271157_01297723 XRCC4 coding CI01000158 null 1271157 ~ 1298361 (+)