RNA id: TCONS_00045357


Basic Information

Item Value
RNA id TCONS_00045357
length 3215
RNA type mRNA
GC content 0.38
exon number 11
gene id XLOC_022811
representative False

Chromosome Information

Item Value
chromosome id NC_007135.7
NCBI id CM002908.2
chromosome length 42172926
location 11908480 ~ 11921184 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTTTCTGATAGTAACAGTTTATCACTATGGGAATTCACGGACTTGCAAAGCTCATTGCAGATCACGCGCCTTCGGCTATTAAGGAGCATGAAATCAAAAGCTACTTTGGACGGAAGATTGCTATAGATGCCTCCATGTGCATCTACCAGTTTTTGATTGCGGTTCGACAGGACGGTAATGTGTTGCAGAATGAAGATGGAGAGACCACTAGCCACCTCATGGGCATGTTCTACAGGACCATCCGAATGCTGGAAAGCGGCATCAAGCCGGTTTATGTTTTTGATGGGAAGCCACCTCAGCTCAAGTCAGGAGAGCTTGAGAAGAGAGTTGAGAGACGAGCAGAGGCTGAGAAACTTCTAGCTCAGGCACAAGAAGCAGGTGAGCAGGAAAATATTGACAAGTTTAGTAAACGACTAGTGAAGGTAACCAAACAACACAATGAGGAATGCAAGAAATTACTTTCTCTAATGGGAGTCCCATACATTGAGGCTCCATGTGAGGCAGAGGCGAGTTGTGCTGCTCTGGTGAAAGCAGGGAAGGTTTATGCCACAGCAACAGAAGATATGGACGGTCTGACATTTGGAACAACGGTCTTATTGAGGCATCTAACAGCTAGTGAAGCAAAAAAGCTCCCCATCCAAGAGTTTCACTTCAGTCGTATTCTGCAGGATATGGAGCTGACGCATCAACAGTTCATCGACCTGTGTATCCTGCTGGGCTGTGACTACTGTGGCACTATAAAGGGAATCGGACCCAAGAGGGCCATTGACCTAATTAAACAGCATGGCTCTATTGAAGAAATTCTGGAGAATATTGACCCAAATAAGCACCCTGCTCCAGAGGACTGGCTGTATAAAGAGGCTCGGGGTCTCTTCTTGGAACCTGAGGTCGTGGATGGCACCTCTGTCGATCTGAAGTGGAATGAACCTGATGAGGATGGGCTAATTCAGTTCATGTGTGCTGAGAAGCAGTTCAGTGAGGATCGTATCCGTAACGGCTGTAAGAAGATCACAAAGAGCAGACAAGGCAGCACCCAGGGCCGACTGGACACATTCTTTACTGTAACCGGATCAATCTCTTCTAAGCGTAAGGAGCCTGAAACAAAGGGATCtgccaaaaagaaacaaaagacaAGTGCTACGCCAGGCAAATTTAAGAAGGGCAAATGAAAGGGATTTCTGCAAAATGAGTTTATTTCATATCGTCACTTCTTattgctaaaaaaacaaaaaagtcaacaTTACCTTTTGAGTATTTTAGGGGAACTATGTTTTAAATACCCTGTTGTGCTGTCTATCTTGAATAAAGATAAGTATTTAATGATTCCAGTGTGGTCTATTTTTTGGTGTTCATCTTCAAAGAATTGTGATCTTTGTTGGATGCGACACATTGCTGATGTTCACGATGTACAAGCAAAAGGCTGACAACACCAATGAATTTTTGTATTTTGCCCTACAGCATTTTCAGCCCACAAGCTTTTCTTAGCTCTTCACCATTCTGTCAGAGCAAAAATAATTAACTCCAAACTAAAGCCTCTCTGTTGCCTGAATTTGGGTTGCTAAACAGGTTTGCATATGAGGAAGTACAACAGACTGCTCTAAGGTATACAAATCTCATTTAGAATATTTTATTGCAGAATTAAGACAATTTTAATAATGTTGATGTAGAGCATTTTGTAGTTTCAATGCGTTTGACTTTGGGTATTgattgttttaatgttgtaatgtaCAATTCTTAACCTGTTACAGAGTAGGAGCCCCTGGAAAGAGTTAACTGCAGCATCACTTCTTTTGTCTGCAAACTACTAGTTAGACTGATAGAAATCCACAGCTCAGTCAGGAAATTGTGTCAGAGCCTCCAATTCACTGAATGATAGCGTATACTGCTGTAGGTGAGTTGTTATTTTGCAAACGTTTGACAAATTCAAGTTAAAAACTGGACATACCATAGCTGATTAGAGACAACTGTTTCTATGTCTGTTTGTACTTTCAGCAGTCGAGATGTCCTCCTTGCCTTTAATGGTTTTTCTCTTTTTCCCTTATGCGTTTTTACTAAAATGTACAGGTGAGTCAGTGCCTGAAGTGTACAGCAAAAACTGATTTGAAAACATTTGTATAATAATTGTGAGGGGGGAAGTATTGAAGTTGTTTTAGCTTGTATAACCTTTCTGTTTTCAGAACAATATCATGCACGTTTACCTAGCAATATAACAGGGCTTAGTGACTCTTGTTTGAGGATACCCTGTGAATTTGAGGCAGACAGCACACAGATGAACaatggaaaaatatttgttttttgggtAAAAACAACCCATAGTATCCAAGTTCCAGCCAATGTGGTTTATAATGGAACAACCAACATGACTAAAGGATTTAGCCATATAGAGATAACTGGAAATCTTGGCAAGAATGATTGTACGacagttttttacaatgtcaTGAAAAATCATTCAGACAACTACTACTTTAGAGTTGAAATCGAACCACAACAATGGTATTTCTCATACACCAATCCTGTCTACATTTCGGTCTCAGGTAAGTGGGTCTGCTTTGTAAACATACTagtgtaatgtttaaattatgtttagaaatgtgctgaaaaaaatcttctctccaataaacaaaaattaggggaaaaaactagggctaataattctgacttcaacagtgtgtgtgtgtgtgtgtgtgtacacgcaCACGTACATAGtggaagttagaattattagcccctgtttattttttccccaatttctgtttgacgaaaatatttttttcagcgcatttctaaacataatagttataataactgatttatttaatctctgcattgatgacagtacagaatattttcctagatattttaaagatgcttttatacagcttaatttgacatttaaaggctttactaggttaattaggcaggttagagtaattatgcaagttattgtataacagtggtttgttctgtagactatcgaaggaAATGGCTTGAAGTGGCTaaatattttgaccttaaaatgttttttttttttaaaaaaggggggtaataattctgacttcaactgtatatatatatatatatatatatatatatatatatatgtatatacatgtgtatatatgtatgtgtgtgtgtgtgtatatatatatatatatatgtgtgtgtgtgtgtgtatatatatatatatatatatatatatttatatatatatttat

Function

GO:

id name namespace
GO:0006974 cellular response to DNA damage stimulus biological_process
GO:0043137 DNA replication, removal of RNA primer biological_process
GO:0006260 DNA replication biological_process
GO:0060041 retina development in camera-type eye biological_process
GO:0006281 DNA repair biological_process
GO:0006284 base-excision repair biological_process
GO:0005634 nucleus cellular_component
GO:0005654 nucleoplasm cellular_component
GO:0005730 nucleolus cellular_component
GO:0005739 mitochondrion cellular_component
GO:0008409 5'-3' exonuclease activity molecular_function
GO:0030145 manganese ion binding molecular_function
GO:0004518 nuclease activity molecular_function
GO:0004519 endonuclease activity molecular_function
GO:0004523 RNA-DNA hybrid ribonuclease activity molecular_function
GO:0046872 metal ion binding molecular_function
GO:0004527 exonuclease activity molecular_function
GO:0016787 hydrolase activity molecular_function
GO:0016788 hydrolase activity, acting on ester bonds molecular_function
GO:0048256 flap endonuclease activity molecular_function
GO:0017108 5'-flap endonuclease activity molecular_function
GO:0003677 DNA binding molecular_function
GO:0003824 catalytic activity molecular_function
GO:0000287 magnesium ion binding molecular_function

KEGG:

id description
ko03030 DNA replication
ko03410 Base excision repair
ko03450 Non-homologous end-joining
ko03032 DNA replication proteins
ko03400 DNA repair and recombination proteins
ko04147 Exosome

ZFIN:

id description
ZDB-GENE-031112-11 Predicted to enable metal ion binding activity and nuclease activity. Acts upstream of or within retina development in camera-type eye. Predicted to be located in mitochondrion; nucleolus; and nucleoplasm. Predicted to be active in nucleus. Is expressed in brain; head; pectoral fin musculature; and proliferative region. Orthologous to human FEN1 (flap structure-specific endonuclease 1).

Ensembl:

ensembl_id ENSDART00000178622

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00046796 lncRNA upstream 310304 11597090 ~ 11598529 (+) False XLOC_022808
TCONS_00046797 lncRNA upstream 310674 11597292 ~ 11598159 (+) True XLOC_022808
TCONS_00046795 lncRNA upstream 310714 11597090 ~ 11598119 (+) False XLOC_022808
TCONS_00046794 lncRNA upstream 369118 11539508 ~ 11539715 (+) True XLOC_022806
TCONS_00046943 lncRNA upstream 562382 11334635 ~ 11346451 (+) False XLOC_022804
TCONS_00046798 lncRNA downstream 21680 11942864 ~ 11943328 (+) True XLOC_022812
TCONS_00046945 lncRNA downstream 35814 11956998 ~ 11958133 (+) True XLOC_022813
TCONS_00046946 lncRNA downstream 133846 12055030 ~ 12060454 (+) False XLOC_022814
TCONS_00046799 lncRNA downstream 174346 12095530 ~ 12102138 (+) True XLOC_022816
TCONS_00045362 lncRNA downstream 208542 12129726 ~ 12132445 (+) True XLOC_022817
TCONS_00045350 mRNA upstream 518164 11381400 ~ 11390669 (+) True XLOC_022805
TCONS_00045347 mRNA upstream 561962 11334733 ~ 11346871 (+) False XLOC_022804
TCONS_00045348 mRNA upstream 562576 11334781 ~ 11346257 (+) False XLOC_022804
TCONS_00045345 mRNA upstream 798746 11105786 ~ 11110087 (+) False XLOC_022803
TCONS_00045359 mRNA downstream 153156 12074340 ~ 12083352 (+) False XLOC_022815
TCONS_00045360 mRNA downstream 153182 12074366 ~ 12082819 (+) False XLOC_022815
TCONS_00045361 mRNA downstream 153825 12075009 ~ 12085001 (+) True XLOC_022815
TCONS_00045363 mRNA downstream 212630 12133814 ~ 12252626 (+) False XLOC_022818
TCONS_00045364 mRNA downstream 212670 12133854 ~ 12252391 (+) False XLOC_022818
TCONS_00045354 other upstream 283966 11622196 ~ 11624867 (+) False XLOC_022810
TCONS_00045353 other upstream 284911 11622196 ~ 11623922 (+) False XLOC_022810
TCONS_00045355 other upstream 285412 11622575 ~ 11623421 (+) True XLOC_022810
TCONS_00045352 other upstream 294460 11614257 ~ 11614373 (+) True XLOC_022809
TCONS_00045351 other upstream 342391 11564896 ~ 11566442 (+) True XLOC_022807
TCONS_00045358 other downstream 136818 12058002 ~ 12061352 (+) True XLOC_022814
TCONS_00045367 other downstream 236220 12157404 ~ 12223660 (+) True XLOC_022818
TCONS_00045382 other downstream 1096475 13017659 ~ 13068380 (+) True XLOC_022829
TCONS_00045390 other downstream 2003882 13925066 ~ 13965939 (+) False XLOC_022836
TCONS_00045400 other downstream 2429716 14350900 ~ 14351020 (+) True XLOC_022840

Expression Profile

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