RNA id: TCONS_00025486


Basic Information

Item Value
RNA id TCONS_00025486
length 3643
RNA type mRNA
GC content 0.41
exon number 11
gene id XLOC_012773
representative False

Chromosome Information

Item Value
chromosome id NC_007129.7
NCBI id CM002902.2
chromosome length 51023478
location 20468157 ~ 20492059 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TTTATCGCACTCAACGATTACAAAACATTCAATCTTCTACGTCACTGAATGTAGTGAAAATTCGTGTCTGTGCACGTGTGCGGTGTTGATCTGGCCAATTTTGGGTCTCATGGCGGATGTATCCTTAAACACTTGAAAGAAAGACAAGAAAGTAGCTTTGCAATGGCGCGAGGAAGAGCTCAGACAGACTCTGCTGCATCGAAGCAGACGAAGACTGTCAATTCAAAGAAAAGACCGAATGAAGAAACTCCGCAACCTTCCACCAAAAAGCTGAAAGCTAAACAACAACATAAGAGCAAACAAAAAGAAGAAACCTATATACAAGCAAGTGTGAAATGGACAGGAGGTCAAAAGAAAGTGGGCCAAACAAGCATTCTTCATTACATTTACAAAAGTTCATTGGGACAGAGTATCCATGCTCAACTGCGCCAGTGTCTGCAAGAGCCTTTCATACGCTCACTTAAATCTTACAAGCTGCACCGAACTGCCAGTCCCTTTGACAGGAGGGTCACTAGTCTGGAATGGCATCCCACACATCCCACCACCGTTGCAGTGGGATCAAAGGGTGGAGACATCATCCTGTGGGATTATGATGTGCTGAATAAAACCTCTTTCATACAAGGGATGGGTCCTGGAGATGCAATAACAGGCATGAAGTTTAACCAGTTCAATACCAATCAGCTGTTCGTCTCCTCTATTTGGGGTGCTACTACCCTTCGGGATTTCAGTGGATCCGTTATACAAGTCTTTGCCAAAACAGATTCATGGGATTACTGGTACTGCTGTGTGGATGTGTCTGTTAGCCGTCAGATGCTTGCTACTGGGGACAGTACTGGAAGACTTCTCCTTCTTGGCCTGGATGGTCATGAGattttcaaAGAGAAGCTGCACAAAGCCAAAGTGACCCATGCCGAATTCAACCCtcgctgtgattggctgatggcaaCATCCTCTGTTGATGCTACAGTCAAGCTGTGGGACCTCCGGAATATTAAAGACAAAAACAGTTACATCGCTGAGATGCCTCATGAAAAACCAGTCAATGCTGCATACTTCAACCCGACAGACAGCACCAAGTTGCTTACTACTGATCAGAGGAATGAGATCAGGGTGTACAGTTCATACGACTGGTCTAAACCGGATCAAATAATTATTCATCCTCATCGGCAGTTTCAGCACTTGACTCCCATCAAGGCAACCTGGCATCCCATGTATGACCTCATTGTGGCTGGCCGTTACCCAGATGATCAACTATTACTCAATGATAAAAGAACTATTGACATTTATGATGCCAACAGTGGTGGACTTGTGCACCAGCTGAGAGACCCCAATGCAGCTGGTATCATATCTctcAACAAATTCAGTCCAACTGGGGATGTGCTTGCGTCTGGAATGgGCTTTAACATTTTGATCTGGAACCGAGAGGACACACTGAGCAGTGTTAATAGGAAACAGACAATAGTGACAGGTGAGGACGTTGGAGGCAGAGCTGGAGGTTCCAGATCCCAGCGCAGCTCACAGCAGCGTCCAAGCAGAGACAGAAGAGCAGCTGCTGATGAGGCCAAGCTCAAGAAGAAACTCTCAGCCACAGAAACCAAGTCAAAGACCAAGAGCAAGACCGAATCCAAAACATCCAAATCAAAGAAAAAGTGAGAGAATATGCTAAATTTAAATTGGGTCTCATTTGTTCTCATGTCaatatataaatcattaaaaaatcacATGTTGCCTTTTCATAAAACCTTAAATATGTATGTTCCAttcataataaatgttttgtacctttttttacagttaaaaatgtgtctttttgaCTTGTAAAATATGGATTGCATTTGCAAATCAAAAATAAGCATTagttagagcagtgtttctcaaccacgttcctggaggaccaacagcactgcatgttttggatatcTTCTTTGTCACACTCATTTCAGGTCTTCAGTCTCtactgatgatctgaatcaggtctgtgtggttaaggagacatggaaaatgtgcaaagctggtggtcctccaggaacgtggttgagaaacactgagttACAGGTTGAAGAAAATCAAATCAATACTAAACTGTGATGTCATAAACCAGGTAAAGAAAGTTACTTCAACGGCTGTATGTTTATTGATAGTTAAGACTTGCGTAGCTGAACTAAAGTTACGTTCGCAAGACGTCCAAGTATATTGCTCCAGGCCTGCTGCTCTGACTCCAGCCTGTGGAACCGGGCCTGATAAGCTGAATAGATGCTCCCGAGGATGAGGGTCTCAAAATGGGCCTGATTAAAAGAGTTGGCCTGCTCCTCCATCACAGCCAGTAACTTCTCCATTGCAGACGCAGTCTTTGGgatattgtcatttataagagatAAAAAAGCTCGGCCTTGTCGCATAGATGCTATTTCTTGATCCCGCATGACAATGTTATCGTCCACGTCAATCTCCAGTCCTCTCAATAAGAACTACAATAAAACCAAAGGTATTGGGGGGAAATGTTTAGTGATCctgcacatttaaaattataaatatttttttttaatatttaatttaaaatgttaatactaCTATATTCAAGTAAACATATTTGCATCTGCAAACTGCTACTGACAGGTTGTCCATATTTCATATTAACACTTATTTGAAGATGTAATATTTTTTAGGGGTGGGGGGGAGCATGGAAATGCAAGGAAATGGAGCAAGACAATGCAAAATAACTCAATGTATTGTTTTAGAAATAATTATGCCAGAGAGGAATTTTATCATTACAGTGCTTAACTGCAACTTTTCAAGAGATCAATGACTTTGTGGAATGTAGGCTTTATTTTCTTACCTCAAACATCAGGTTAGCATCACCTACAGATCTGATAGATTCTTGAGGCTCGAGTCCTCCGTGAAGAACTGCTAAAACATCTGCAGCACAGCACACAGAGACTCGTAAATTACACAAATATTTGAGAGACAAACAGAAAGTGCATCAATTAAGTATAAAAGCTTGAATAatgcaaaacaaacaatttaagcaTTAAACTGTCCACAGTCACGGCACAATGCTCGAGTAACTATTTCCCCCCATGTGCTCAAGTAATTTAatgtcaaaatattttaattctgcCGTCATAGTTGGAAAAACTCAAGTCCAACATGACACACATGCCAGTTCCACAGTCTAACAAACTGCTAATGAAATCTAGTAGCACTATTATACCACTATAACTGTAATTACAATCTAAATCAACGTGTATTAAACAACAAATACCTTAAACAGaagcacatatcgtgtcaaaagtCCTTACCTGTTGTGTTCCAGGGCTCTCTAATGCCTAAGATCCCCaaaacaacaaatacttttatttGTGTCAGCAGCATATCAGcaaaaataaaattcactttaattcaCGTATAGCTTCAGTCGTCGTTTGTTTCAGCTCCACAAAAAGGCTGAATCCCTGAGAGAGAGACCGTCTTTAGTGCGCTGCATTTTTTCACCTGCGGAAAAAGACAATTGGAGCCAAACTGGGTCATGCAGAAAGAGCAACTGAAGAACTATCATTTACAATACATATTTCAATAAAATCCTCACAGACcatcacatttaaaaattaaaacctgtaCATTATAGCTTTTTAGTGCTTGGGAC

Function

GO:

id name namespace
GO:0006974 cellular response to DNA damage stimulus biological_process
GO:0016567 protein ubiquitination biological_process
GO:0009411 response to UV biological_process
GO:0006281 DNA repair biological_process
GO:0005634 nucleus cellular_component
GO:0080008 Cul4-RING E3 ubiquitin ligase complex cellular_component
GO:0003677 DNA binding molecular_function
GO:0003684 damaged DNA binding molecular_function

KEGG:

id description
ko04120 Ubiquitin mediated proteolysis
ko03420 Nucleotide excision repair
ko04115 p53 signaling pathway
ko05200 Pathways in cancer
ko05202 Transcriptional misregulation in cancer
ko05210 Colorectal cancer
ko05212 Pancreatic cancer
ko05225 Hepatocellular carcinoma
ko05226 Gastric cancer
ko05214 Glioma
ko05216 Thyroid cancer
ko05220 Chronic myeloid leukemia
ko05217 Basal cell carcinoma
ko05218 Melanoma
ko05213 Endometrial cancer
ko05224 Breast cancer
ko05222 Small cell lung cancer
ko05223 Non-small cell lung cancer
ko05161 Hepatitis B
ko05169 Epstein-Barr virus infection
ko04121 Ubiquitin system
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-050419-169 Predicted to enable DNA binding activity. Predicted to contribute to damaged DNA binding activity. Predicted to be involved in DNA repair and response to UV. Predicted to act upstream of or within cellular response to DNA damage stimulus. Predicted to be part of Cul4-RING E3 ubiquitin ligase complex. Predicted to be active in nucleus. Is expressed in central nervous system and neurons. Human ortholog(s) of this gene implicated in xeroderma pigmentosum and xeroderma pigmentosum group E. Orthologous to human DDB2 (damage specific DNA binding protein 2).

Ensembl:

ensembl_id ENSDART00000060302

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00027105 lncRNA upstream 91223 20328119 ~ 20376935 (+) False XLOC_012772
TCONS_00027106 lncRNA upstream 139507 20328125 ~ 20328651 (+) True XLOC_012772
TCONS_00027104 lncRNA upstream 142937 20316443 ~ 20325221 (+) True XLOC_012771
TCONS_00025481 lncRNA upstream 260029 20089381 ~ 20208129 (+) False XLOC_012769
TCONS_00027103 lncRNA upstream 376816 20089658 ~ 20091342 (+) True XLOC_012769
TCONS_00025498 lncRNA downstream 85670 20566846 ~ 20572334 (+) False XLOC_012777
TCONS_00027107 lncRNA downstream 682248 21163424 ~ 21169748 (+) False XLOC_012786
TCONS_00026897 lncRNA downstream 683650 21164826 ~ 21169079 (+) False XLOC_012786
TCONS_00027108 lncRNA downstream 684005 21165181 ~ 21169748 (+) True XLOC_012786
TCONS_00025515 lncRNA downstream 912190 21393366 ~ 21394377 (+) True XLOC_012788
TCONS_00025482 mRNA upstream 210647 20225961 ~ 20257511 (+) False XLOC_012770
TCONS_00025483 mRNA upstream 211999 20226843 ~ 20256159 (+) True XLOC_012770
TCONS_00025480 mRNA upstream 385281 20047374 ~ 20082877 (+) True XLOC_012768
TCONS_00025479 mRNA upstream 422851 20034023 ~ 20045307 (+) True XLOC_012767
TCONS_00025478 mRNA upstream 436069 20031046 ~ 20032089 (+) True XLOC_012766
TCONS_00025488 mRNA downstream 806 20481982 ~ 20492059 (+) False XLOC_012773
TCONS_00025489 mRNA downstream 1193 20482369 ~ 20489363 (+) True XLOC_012773
TCONS_00025490 mRNA downstream 13237 20494413 ~ 20511015 (+) True XLOC_012774
TCONS_00025491 mRNA downstream 51442 20532618 ~ 20540709 (+) True XLOC_012775
TCONS_00025492 mRNA downstream 79266 20560442 ~ 20561120 (+) False XLOC_012776
TCONS_00025461 other upstream 1344079 19123332 ~ 19124079 (+) True XLOC_012754
TCONS_00025449 other upstream 1639673 18827249 ~ 18828485 (+) True XLOC_012745
TCONS_00025448 other upstream 1668106 18799118 ~ 18800052 (+) True XLOC_012744
TCONS_00025447 other upstream 1697264 18770075 ~ 18770894 (+) True XLOC_012742
TCONS_00025446 other upstream 1733799 18733425 ~ 18734359 (+) False XLOC_012742
TCONS_00025507 other downstream 540523 21021699 ~ 21023601 (+) True XLOC_012781
TCONS_00025513 other downstream 710489 21191665 ~ 21191784 (+) True XLOC_012787
TCONS_00025547 other downstream 2706243 23187419 ~ 23249572 (+) False XLOC_012803
TCONS_00025560 other downstream 2990970 23472146 ~ 23472260 (+) True XLOC_012806
TCONS_00025562 other downstream 3996350 24477526 ~ 24483172 (+) False XLOC_012809

Expression Profile

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