RNA id: TCONS_00048878


Basic Information

Item Value
RNA id TCONS_00048878
length 3538
RNA type mRNA
GC content 0.54
exon number 29
gene id XLOC_024813
representative False

Chromosome Information

Item Value
chromosome id NC_007136.7
NCBI id CM002909.2
chromosome length 37502051
location 34672068 ~ 34723976 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CAGTCCCAGCGTGCAGCGCGTGAAGATGGCGGGTGTTCTGGAGCGGAGCTACATTGAGATCTGCGGCTTTGAAAGAGAAACAGTTTCGCGGTTCAGACAGATTACATTAAATCTAGgTGGTGTGGGGGTCTCCTCTGGTGGTGTGAAGTATGCAGACAGTGCTGGCGGATTCTCATACGAGGACAGTGGGAAACTGCTGTCGGTCACCAGCAACAGATTCATCCACTGGGCCACCTCGGGTGATACAGTGCAGCTTGTCGAGCAGTCGCTGGACACCAATCTTCTGAATAATGCTGTGCGCCTGCGCATCCCACAATGCCTCCTCCTGCCCGGAGGCGTTTCCATACAGGAGACACTCAACAATGTCATTATTCTGATCGTCACCAGCCAATCAGTGCATCGCCTGGTGTTACCGCATCCGACCCGCATGTACCGCAGCGATCTGGTCACTGAACTCCAGATGCAGTCCATTTTCACAGACATTGGGAAGCTGAATTTAAATGGCCCAGCTCACAGTTACGTTCTCCCGTTCACACAAGGCCCGCACTCCAGCGCTCCGTCCACGTCTGCGGCCTGGATCAGTCACCAGGGGGAGGCGCTGTTCGCTCTCGCCTCGCCCTCAGGAGGCATCGCTGTGGTCACCTTACCGGCTCATGATCAGGATGGCTCCGTGTCCATTCTGGAGTTGAAGCAGAGTTCAATGATGCAGCGTCTGGCCGGCTGGATGCCCACTGCCATCAGGGGAGATCAGAGCATGTCTGATATGGCCGTCAGTCTGGCTGTTCATCAACTGGAGGACGACACTTTCATTTTCACACTGTGTCAAGATCACAAGCTGCGGATGTGGTCACTAAAGcaTCAGATGTGTGTGCTGGTCACCGATATGCTGGAGTTTCTGCCTGTGGGTCGAGGGGAAGTGAAGGCGTCTCCGGCCCAGGCTCATAAACTGCGactcttcttctcctcctccacCGGTCTGTGCGTCGCCGTCTACCTCTCTGTCCCCAAACGCAGCCAGTTCTGTGTGCTGCAGCTGGTGGCCAATGAGAGCAGCCGCTACAGCCTGGACCACATCTCCACGCTGTTCTCCACACAGGAGACGCTGGTGGATTTTGTCTTGACGGCAACTGATATTTGGGCTCTGTGGCTGGATAACGACAACCAGACGGTGGCGAAGTACATCAGCTTTGAGCATAACACTACAGGCATGTGGAACCAGGTGTTCGTCCAGCCGTCGCCAGAGGAAGAAGTTCACATCGGAGAAGACCAAGATCCTCGGGAGATATATCTGGACGTGCTTTTTTCACCGCTACGCTTCACAGCCTCGGCCATCATCAAAGCTTTACAGATTTATAAGCGAGGTCCAGAACGATATTCGGATCTATCATGGGAGGAGCTGAAGAAAGAGGTCACGGTCACAGTGGAAAGCGAGcttcAGGGCAGTGTGACGGAGTACGAGTTCTGTCAGGAGGATTATCGTCTGCTCCAGGTGGAGTTTTGGTCCAAGTTTTACGCCTGCTGTCTGCAGTACCAGGACGTCCTGTCCACACCTCTCGCCCTGCACGTCAGCCCCTCCACCGGCATGATCTGCGTCCTCAAGAAGGGCTTCGTGTCTTTCTTGTTGCCCTGCTTTGCTGTGGACCACCTGTACCTGTCCTCCGATGAATACTTGTTTTCTGAAGAGGAGACTCCTATTGCTGAGGATGCAGAAGTGAGCCGGGATGTCCTGCAGCTGGTTCAGTGTCTGCGTCTGGTGAACGAGTCTCTTCCAGAAGAAATGGCCTACGAGATGGACAAAGCCCTGGACGAGCTGCTGTCCCCGGAGAAAGTGTCCGAGAAGATCCTGGAGAGCCTTTTGGCCAATGACACTGGGAACGTGATTGGCGACATTGCAAACAAACTGCAGGACATCTATAACCCCATCGCTGCCATGAACATGCTGCTCCGAGAGCTGGACCTGGAGACTGACGCCGAGCCTGACGCCAGACACGCAGGTCAGTCTCTGCGAGTGCGCATCAGTCTGTCTCAGCTGTACGGCAGCAGCGTCGCTGCTAGTCTGATCTGTCAGGCCGTTTGTCAGACCGCCATGACCCGAACGCTGCTCTGCAGAGACCTGCTCATCCTGCAGCAGCTCTACCTGCGCATCGGAGAAAATGCGTTTATTTCCGGCGGTCCTCAGTTGCTGCAGCTCCAGCAGGACTTGATTCCTCGATGCTCGAATCTGCTTTGCACTTATCACCTGCTCAAACAGATGAGCCTGACGCTCTCCTCATCTGTCCCACTAGACATACTAAATGCAGATCTTCAGCATCTCTCAGTTCTGGAGCTCTCCGACTCCTCCACTCCTGCGTCCAGCAGATCAGTGTTGAATCCTCAGACCGTGGTGGAGTTGTTCTACCAGAGCGTGGCCCGTAAAACCATCATGTCTCAGATCTTCTCCCAGCAGGACATGGAGAGCGATCAGAGCGTCTTACACTGGCCTCAGATGATCTCCAGTGTCCTGACGCTGCTCTGCCAGGCTCTCTGGCCCAGCAATCCCAGTTTCCTCTTTCCCGAATGCCTGATGGGAAACTGCCAGTACGCACAGCTCCAGgaataTGTGCGGTTAGTCGGGCCCTGGTGTCAGGTGAACGTGGGGTCTTACCGTTTTGTGTTGGGTCAGTGTTATCTGGCCAGCGGTGAGGGGCAAAAGGCATTGCAGTGTTTCCAGGAAGCTGCGACTGAGGTGAATAAAGAAGAGTTTTTAATGAAGCTCACAGGTTCAGATGAAGAAACGGCGACCGCTCCACGATTGCTTTACTACAACAAGGTCCTGCGGTTATTGGAGGATATTGGGTTGCCGGAGCTTGTGATTGAATTGGCAACGCTGGCCGTTTCTGAAGCCACCGATGACAAGAGAAGCCAGGCTGCTCTGTGGACTCGTATCTTCAAGCATCATCTGGATCTCGGACACAACAGTCAGGCGTATGAAGCCCTGACGCAAAACCCGGATTCTAGCAGGCAGCTGGATTGTCTCCGGCAGCTGGTGGTGGTTCTGTGTGAACGCGCACAACTCCGAGATCTCGTCCAGTTCACATATGTTAATTTGCATGACGAGGTTGTCAGCATTATTGAGTCTCGAGCGAGAGCCGTGGACCTCATGACACACAACTACTACGAGCTTCTGTACGCTTTTCACATCAATCGGCACAACTATAGAAAAGcggGTACGGTGATGTTTGAGTATGGTATGCGTCTGGGTCGGGAAGTGCGAACTCTTCGAGGGCTTCAGAAGCAGGTGAACTGTTACCTGGCCGCTCTAAACTGCCTGCGTCTCGTTAGTCCTGATTACGCCTGGATTGTGCAGCCTTCGTCTGGAGCCGCGTATGAACGACCAGGCGCATCCCCGAAAAGGACCCATGATGGAGAATTTGCTGAAAGTCCAGTAAATCAACAGATCGACATTCTGGAGCTGAAAGATCTGGAGAAGGAGTATGTTCTCGCTCGGAGTCGGCTGACTTTGGCTCAGCAGGATCCTCCGTCCGCAGCCATCGCAGGT

Function

GO:

id name namespace
GO:0006302 double-strand break repair biological_process
GO:0022402 cell cycle process biological_process
GO:0098813 nuclear chromosome segregation biological_process
GO:0006325 chromatin organization biological_process
GO:0071840 cellular component organization or biogenesis biological_process
GO:0006974 cellular response to DNA damage stimulus biological_process
GO:1901836 regulation of transcription of nucleolar large rRNA by RNA polymerase I biological_process
GO:0071103 DNA conformation change biological_process
GO:0006996 organelle organization biological_process
GO:0042790 nucleolar large rRNA transcription by RNA polymerase I biological_process
GO:0043414 macromolecule methylation biological_process
GO:0007049 cell cycle biological_process
GO:0051276 chromosome organization biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0007059 chromosome segregation biological_process
GO:0033554 cellular response to stress biological_process
GO:1903047 mitotic cell cycle process biological_process
GO:0000724 double-strand break repair via homologous recombination biological_process
GO:0000725 recombinational repair biological_process
GO:0006259 DNA metabolic process biological_process
GO:0006260 DNA replication biological_process
GO:0006261 DNA-dependent DNA replication biological_process
GO:0006281 DNA repair biological_process
GO:0016043 cellular component organization biological_process
GO:0044422 obsolete organelle part cellular_component
GO:0044424 obsolete intracellular part cellular_component
GO:0044428 obsolete nuclear part cellular_component
GO:0043596 nuclear replication fork cellular_component
GO:0070013 intracellular organelle lumen cellular_component
GO:0043601 nuclear replisome cellular_component
GO:0044446 obsolete intracellular organelle part cellular_component
GO:0044464 obsolete cell part cellular_component
GO:0032991 protein-containing complex cellular_component
GO:0005622 intracellular anatomical structure cellular_component
GO:0005623 obsolete cell cellular_component
GO:0005634 nucleus cellular_component
GO:0005657 replication fork cellular_component
GO:0031974 membrane-enclosed lumen cellular_component
GO:0005694 chromosome cellular_component
GO:0030894 replisome cellular_component
GO:0031981 nuclear lumen cellular_component
GO:0043226 organelle cellular_component
GO:0043227 membrane-bounded organelle cellular_component
GO:0043228 non-membrane-bounded organelle cellular_component
GO:0043229 intracellular organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0043232 intracellular non-membrane-bounded organelle cellular_component
GO:0043233 organelle lumen cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0003682 chromatin binding molecular_function
GO:0003697 single-stranded DNA binding molecular_function
GO:0051536 iron-sulfur cluster binding molecular_function
GO:0051539 4 iron, 4 sulfur cluster binding molecular_function
GO:0051540 metal cluster binding molecular_function
GO:0140097 catalytic activity, acting on DNA molecular_function
GO:0018024 histone-lysine N-methyltransferase activity molecular_function

KEGG:

id description
ko03050 Proteasome
ko03230 Viral genome structure
ko05164 Influenza A
ko05169 Epstein-Barr virus infection
ko03200 Viral proteins

ZFIN:

id description
ZDB-GENE-040426-1603 Predicted to be a structural constituent of nuclear pore. Predicted to be located in nucleus. Predicted to be part of nuclear pore. Human ortholog(s) of this gene implicated in nephrotic syndrome type 19. Orthologous to human NUP160 (nucleoporin 160).

Ensembl:

ensembl_id ENSDART00000187286

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00049421 lncRNA downstream 37814 34641440 ~ 34643204 (-) True XLOC_024811
TCONS_00049420 lncRNA downstream 168916 34478097 ~ 34512102 (-) False XLOC_024809
TCONS_00049419 lncRNA downstream 672534 34007807 ~ 34008484 (-) True XLOC_024805
TCONS_00049418 lncRNA downstream 710953 33963179 ~ 33970065 (-) True XLOC_024804
TCONS_00049417 lncRNA downstream 728824 33939113 ~ 33952194 (-) True XLOC_024803
TCONS_00049422 lncRNA upstream 209894 34933831 ~ 34938131 (-) True XLOC_024816
TCONS_00048883 lncRNA upstream 238726 34962663 ~ 34965071 (-) False XLOC_024817
TCONS_00048884 lncRNA upstream 248621 34972558 ~ 34973205 (-) True XLOC_024817
TCONS_00048885 lncRNA upstream 251146 34975083 ~ 34979558 (-) True XLOC_024818
TCONS_00049423 lncRNA upstream 278218 35002155 ~ 35042110 (-) True XLOC_024819
TCONS_00048877 mRNA downstream 10605 34662358 ~ 34670413 (-) True XLOC_024812
TCONS_00048876 mRNA downstream 48968 34623747 ~ 34632050 (-) True XLOC_024810
TCONS_00048875 mRNA downstream 168916 34487700 ~ 34512102 (-) True XLOC_024809
TCONS_00048872 mRNA downstream 396874 34274691 ~ 34284144 (-) False XLOC_024808
TCONS_00048880 mRNA upstream 3991 34727928 ~ 34740627 (-) True XLOC_024814
TCONS_00048881 mRNA upstream 111616 34835553 ~ 34845302 (-) True XLOC_024815
TCONS_00048882 mRNA upstream 232431 34956368 ~ 34973211 (-) False XLOC_024817
TCONS_00048886 mRNA upstream 320587 35044524 ~ 35045250 (-) True XLOC_024820
TCONS_00048887 mRNA upstream 321866 35045803 ~ 35046114 (-) True XLOC_024821
TCONS_00048871 other downstream 425745 34255145 ~ 34255273 (-) True XLOC_024807
TCONS_00048855 other downstream 2660023 32020881 ~ 32020995 (-) True XLOC_024789
TCONS_00048850 other downstream 2773434 31890273 ~ 31907584 (-) False XLOC_024787
TCONS_00048845 other downstream 3002825 31678079 ~ 31678193 (-) True XLOC_024783
TCONS_00048836 other downstream 3362890 31318012 ~ 31318128 (-) True XLOC_024776
TCONS_00048891 other upstream 367975 35091912 ~ 35095112 (-) False XLOC_024824
TCONS_00048937 other upstream 1234217 35958154 ~ 35963205 (-) True XLOC_024864
TCONS_00048942 other upstream 1334583 36058520 ~ 36058655 (-) True XLOC_024867
TCONS_00048949 other upstream 1530392 36254329 ~ 36263112 (-) False XLOC_024872
TCONS_00048967 other upstream 2236787 36960724 ~ 36975214 (-) False XLOC_024886

Expression Profile

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