XLOC_028539 (dclre1c)


Basic Information

Item Value
gene id XLOC_028539
gene name dclre1c
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 9603306 ~ 9637398 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00055356
GATTTTGCAGTGCGATGCCAGCAGGAGGACAGGACAGATGCCGGGCTCTTGCTCTCCAGCCCGGGGAGAGCTCACCCAGTGATGACCTATAGGTTTACCTACTTTGAGTGTTTACTCAGCCTTTCACCATGAGCTCCTTCGCTGGCCGTATGAAGGAGTATCCCAGCATCTCCTTGGACCGCTTTGACAGGGAGAATCTGCACGCCAGAGCTTATTTCCTCTCTCACTGCCATAAAGATCATATGAAAGGGTTGAAAGGACCTTTACTGAAGAGAAAACTCAAGTTCAGTTTAACCGTCAAGCTGTACTGCTCATACGTCACAAAGGAGCTTCTGCTTAGTAACCCCAGATATGCATTCTGGGAAGATCATATCGTCCCTTTGGAACTTGACAGTCCAACCAGCATATCTCTCATAGATGAAAGCAcaggagagACAGAGGATGTGGTGGTTACTCTGCTTTCAGCGGGACACTGTCCAGGATCAGTCATGTTTCTCTTCGAGGGTGCAAAGGGAACAGTGCTTTACACAGGAGACTTCAGACTGGCTGTCGGAGATGCAGCGAGAATGGAGTACTTGCACTCTGGAGACAGGGTAAAGGACATTCAGAGTGTGTACATCGACACCACATTCTTTGATCCCAAGTACTATCAGATTCCTAGCAggGAGGCTTGTTTGGCTGGGATACAGCAGCTGGTCCAGGACTGGATCTGTCAGAGTCCGTATCATGTTGTTTGGTTAAACTGTAAGGCAGCGTATGGTTATGAGTACCTCTTTACCAACTTAGGACAGGAGTTCAACTCACAGATACATGTGAACAGCTTggacatgtttaaaaaaatgcctGAAATTCTGTGTCACGTGACCACCAACCGTGCAACGCAGATCCACGCTTGTCGCCACCCGAAGGATGAGGAGTTCTTCAGAGCGAACAGGTTACCCTGCGGCTCTACGGCTCCAGATGGCATTCCTCTGAACATCATCAGCATCAAACCCTCCACGATATGGTTTGGAGAACGGACCAGAAAGACTTCAGTTGTGGTGAAgatggGTAGCAGTTCCTACAGagcatgcttttcttttcattcCTCATACTTGGAGGTTAAGGACTTCCTGTCTTACATCTGTCCTGTTAACATCTACCCAAACGTCATTCCCTTGGGCAAGACTGTGGAGGACCTCACAGAGCTGTTGAAGCCACTGTGTAGAAAACATTGTGGACGAGAGGAGATTGTCTATAAACCACTCGGGGCTCTCAAGAGAACGAGAAAGAGAAGCACATCAGAAGGCTCAGACAGTGATGGCGACCTGTTTGAGGAGGTTTCAACAGCTCCAAGGCGGCGCAAGATTACAGTGTCTGACCTGACCACAGTTGCCATAAGAGTACGGCCTCACAGCGCTAATGCAGACTCGCACGATAATGACCAAACATATTCCCTCATAAAGCTTTGTCCGTCTGCACACACATCCAACTATATGGACTGCACTGAATcaaacgatgatgatgatgatgaagatgatgcaGCCGAACAAACTCCTGCTGCAGCTCCTCCTCCATCTTCCACAGAAAAGCCATGttcaaaacacactcattcagactCCTCACTAACCAGTTCTACTCAGCCCTGTTGGGAAAAGTTCTTCAAGGCAGAAGTGGTGCTGACGGACGAGAGTGAGTTGGAGAACAGTCAGAACACACAAACGCTCTCCACTGAAAACACAGCGTCTCAATCACCAGAGCTCTTTCAGGATGAAGATGAAGACAGCTCCGTTCACATGAGCTCCTCTCAGTCTACTCATATATCAGACGCAGGGACTGAAAGCCTGAGTCAAGTAGACACGATCATGGTTCAAGAGGACCACAGTAAGGCCTGTAACCTCCAACACAAGACTGAAGAAGCAGCGGAGCTCAAATCAGACTCGCAAGTTTCATCTGACTTTGAGCTTCCACCGACTCCAGGATCTAAAGTCCCACAGCCTGAAGACCTGAAGGAGCTGTACAGGAAGTTGGCAGCAGGAGAGGACGTTGTTGCAAGACAGATTTTTTGAGTGCtaatttttttggggggtttgtttcccaaccctgttcctgaaggcacaccaacagtacacattttcaacctctccctaatcaaacacacctgaatcaactcatcagaacattagaagagactcaaaacctgaagttaatggatcagataagggagacatctaaaatatgtactgttggtgttcctccaggaacagggttgggaaacactatGTTAGACAACACTTTACCTCATGCAGTTTTGTACCTTTTGCAGTTTTGTAAAAGCTCAGTGCTttaagcaaattaattaaaagtcTGAAGGAAATGTTTTCAGTCTTACGATTAAATAAGATCATTTCAACTGAACAA
>TCONS_00055357
TTCAGACTGGCTGTCGGAGATGCAGCGAGAATGGAGTACTTGCACTCTGGAGACAGGTTTTcagataaagatttttttaaaatgccacatttagtagaaaataataatataacacaaGTGTCCATTCTGCAGGGTAAAGGACATTCAGAGTGTGTACATCGACACCACATTCTTTGATCCCAAGTACTATCAGATTCCTAGCAggGAGGCTTGTTTGGCTGGGATACAGCAGCTGGTCCAGGACTGGATCTGTCAGAGTCCGTATCATGTTGTTTGGTTAAACTGTAAGGCAGCGTATGGTTATGAGTACCTCTTTACCAACTTAGGACAGGAGTTCAACTCACAGATACATGTGAACAGCTTggacatgtttaaaaaaatgcctGAAATTCTGTGTCACGTGACCACCAACCGTGCAACGCAGATCCACGCTTGTCGCCACCCGAAGGATGAGGAGTTCTTCAGAGCGAACAGGTTACCCTGCGGCTCTACGGCTCCAGATGGCATTCCTCTGAACATCATCAGCATCAAACCCTCCACGATATGGTTTGGAGAACGGACCAGAAAGACTTCAGTTGTGGTGAAgatggGTAGCAGTTCCTACAGagcatgcttttcttttcattcCTCATACTTGGAGGTTAAGGACTTCCTGTCTTACATCTGTCCTGTTAACATCTACCCAAACGTCATTCCCTTGGGCAAGACTGTGGAGGACCTCACAGAGCTGTTGAAGCCACTGTGTAGAAAACATTGTGGACGAGAGGAGATTGTCTATAAACCACTCGGGGCTCTCAAGAGAACGAGAAAGAGAAGCACATCAGAAGGCTCAGACAGTGATGGCGACCTGTTTGAGGAGGTTTCAACAGCTCCAAGGCGG
>TCONS_00055358
gtaggcttgctatagctgaaacacagagacaGTTTGAAGGCCATAGCCTTGACTTCAGGTTATCGCTAGACAGAATGAAGTGGAGGACCCTTCATACACCAGACAGCAGGAGGGATTCATTAACTCACCTCGACTTGAACAGCATgcttgCTATAGCTGAAGCACAGAGACAGTTTGAAGGCCATAGCCTTGACTTCAGGTTATCGCTAGACAGAATGAAGTGGAGGACCCTTCATACACCAGACAGCAGGAGGGATTCATTAACTCACCTCGACTTGAACAGCATgcttgctatagctgaaacacagagacaGCTTGAAGGCCATAGCCTTGACTTCAGGTTATCGCTAGACAGAATGAAGTGGAGGACCCTTCATACACCAGACAGCAGGAGGGATTCATTAACTCACCTCGACTTGAACAGCATTGCGATGCCAGCAGGAGGACAGGACAGATGCCGGGCTCTTGCTCTCCAGCCCGGGGAGAGCTCACCCAGTGATGACCTATAGGTTTACCTACTTTGAGTGTTTACTCAGCCTTTCACCATGAGCTCCTTCGCTGGCCGTATGAAGGAGTATCCCAGCATCTCCTTGGACCGCTTTGACAGGGAGAATCTGCACGCCAGAGCTTATTTCCTCTCTCACTGCCATAAAGATCATATGAAAGGGTTGAAAGGACCTTTACTGAAG

Function

symbol description
dclre1c Predicted to enable 5'-3' exodeoxyribonuclease activity and damaged DNA binding activity. Predicted to be involved in double-strand break repair via nonhomologous end joining; interstrand cross-link repair; and protection from non-homologous end joining at telomere. Predicted to act upstream of or within DNA recombination and DNA repair. Predicted to be located in nucleus. Predicted to be part of nonhomologous end joining complex. Human ortholog(s) of this gene implicated in Omenn syndrome; common variable immunodeficiency; severe combined immunodeficiency; and severe combined immunodeficiency with sensitivity to ionizing radiation. Orthologous to human DCLRE1C (DNA cross-link repair 1C).

GO:

id name namespace
GO:0006303 double-strand break repair via nonhomologous end joining biological_process
GO:0006310 DNA recombination biological_process
GO:0036297 interstrand cross-link repair biological_process
GO:0006974 cellular response to DNA damage stimulus biological_process
GO:0031848 protection from non-homologous end joining at telomere biological_process
GO:0006281 DNA repair biological_process
GO:0005634 nucleus cellular_component
GO:0070419 nonhomologous end joining complex cellular_component
GO:0004518 nuclease activity molecular_function
GO:0004519 endonuclease activity molecular_function
GO:0004527 exonuclease activity molecular_function
GO:0035312 5'-3' exodeoxyribonuclease activity molecular_function
GO:0016787 hydrolase activity molecular_function
GO:0003684 damaged DNA binding molecular_function

KEGG:

id description
ko03450 Non-homologous end-joining
ko05340 Primary immunodeficiency
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-041210-72 Predicted to enable 5'-3' exodeoxyribonuclease activity and damaged DNA binding activity. Predicted to be involved in double-strand break repair via nonhomologous end joining; interstrand cross-link repair; and protection from non-homologous end joining at telomere. Predicted to act upstream of or within DNA recombination and DNA repair. Predicted to be located in nucleus. Predicted to be part of nonhomologous end joining complex. Human ortholog(s) of this gene implicated in Omenn syndrome; common variable immunodeficiency; severe combined immunodeficiency; and severe combined immunodeficiency with sensitivity to ionizing radiation. Orthologous to human DCLRE1C (DNA cross-link repair 1C).

Ensembl:

ensembl_id ENSDARG00000045704

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00055356 False 2400 mRNA 0.47 14 9603306 9609634
TCONS_00055357 False 880 lncRNA 0.46 8 9604366 9607454
TCONS_00055358 True 689 mRNA 0.49 5 9609240 9637398

Neighbor

gene id symbol gene type direction distance location
XLOC_028538 cdnf coding downstream 10904 9587968 ~ 9592402 (-)
XLOC_028537 shank3b coding downstream 16593 9555280 ~ 9586713 (-)
XLOC_028536 tymp coding downstream 53613 9543459 ~ 9549693 (-)
XLOC_028535 si:ch73-139j3.4 coding downstream 69961 9524805 ~ 9533345 (-)
XLOC_028534 NA coding downstream 81364 9514548 ~ 9521942 (-)
XLOC_028540 BX901962.1 coding upstream 11885 9649283 ~ 9651968 (-)
XLOC_028541 dmtf1 coding upstream 14818 9652216 ~ 9667410 (-)
XLOC_028542 tspan9b coding upstream 59567 9696965 ~ 9722568 (-)
XLOC_028543 mical3b coding upstream 86794 9724192 ~ 9764769 (-)
XLOC_028544 svopl coding upstream 131652 9769050 ~ 9781132 (-)
XLOC_028533 NA non-coding downstream 213658 9388818 ~ 9389648 (-)
XLOC_028527 NA non-coding downstream 552361 9048306 ~ 9050945 (-)
XLOC_028525 NA non-coding downstream 697853 8904291 ~ 8905453 (-)
XLOC_028521 BX842699.1 non-coding downstream 867715 8709082 ~ 8735591 (-)
XLOC_028551 NA non-coding upstream 709340 10346738 ~ 10348612 (-)
XLOC_028553 BX897748.1 non-coding upstream 1024163 10661561 ~ 10661677 (-)
XLOC_028554 NA non-coding upstream 1111579 10748977 ~ 10752941 (-)
XLOC_028555 NA non-coding upstream 1128616 10766014 ~ 10835620 (-)

Expression


Co-expression Network