RNA id: TCONS_00035794


Basic Information

Item Value
RNA id TCONS_00035794
length 2576
RNA type mRNA
GC content 0.45
exon number 18
gene id XLOC_018154
representative False

Chromosome Information

Item Value
chromosome id NC_007131.7
NCBI id CM002904.2
chromosome length 55201332
location 29619820 ~ 29633507 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTCCTGTGTCTACAGCGTGTGGTTTTCAGTTCACTTGATCGTTGTTTGGTATTATTGGAGGTATCGCTAAATATGCAAGAAGTATTACTTATTTAAGATTAAAACCATCACAAACATGGCTACCAAACGTAAAGCCGATGTACCAGTGCCTGCGGAAGAGAGTGATCAGCTCCTCATCAGACCGCTAGGAGCTGGGCAGGAGGTTGGCAGGTCCTGTATCATCCTGGAGTTCAAAGGCCGCAAAATCATGCTGGACTGTGGCATCCACCCTGGACTGGAGGGCATGGATGCATTGCCTTACATTGATTTAATAGACCCAGCTGAGATTGACCTGCTGCTCATCAGCCATTTTCACTTGGATCATTGTGGAGCTTTACCATGGTTTTTACAGAAGACAAGTTTCAAAGGGAGGACATTCATGACCCATGCCACCAAAGCCATCTACCGCTGGTTACTTTCAGACTATGTCAAAGTCAGCAATATTTCAGCTGACGACATGCTGTACACCGAGACTGATCTAGAAGAAAGCATGGACAAGATAGAAACCATCAACTTCCATGAAGTGAAAGAGGTGGCCGGCATCAAGTTTTGGTGTTATCATGCAGGGCATGTTTTGGGAGCAGCCATGTTCATGATTGAGATTGCAGGAGTGAAGCTGCTGTACACCGGTGATTTCTCACGCCAAGAAGACCGACATCTCATGGCTGCTGAGATTCCCAGCGTCAAACCAGACATTCTCATTACTGAGTCCACATATGGTACACACATCCATGAGAAGCGAGAGGAGAGAGAGGCTCGTTTCTGTAACACAGTCCATGACATAGTGAACCGTGAGGGCCGCTGTCTCATCCCCGTGTTTGCTTTGGGCCGAGCCCAGGAGCTGCTTCTCATTCTAGATGAATACTGGCAGAATCATCCTGAGCTCCATGACATTCCTATTTACTATGCTTCGTCTCTGGCTAAGAAGTGCATGGCTGTGTATCAGACCTATGTGAATGCAATGAATGACAAGATCCGCAAGGCCATCAATATTAATAACCCTTTTGTCTTTAAGCATATCAGCAATCTCAAGAGCATGGACCATTTCGATGACATCGGCCCAAGTGTAGTGATGGCATCTCCAGGTATGATGCAGAGTGGCCTCTCCAGAGAGCTGTTTGAGAGCTGGTGCACAGACAAGAGGAACGGCGTCATCATAGCGGGTTACTGTGTGGAAGGAACACTCGCAAAGCATATCATGTCTGAGCCTGAGGAGATCACCACCATGTCTGGACAGAAGCTTCCGCTGAAGATGTCAGTGGATTACATCTCATTCTCTGCTCATACAGACTACCAGCAGACCAGCGAGTTCATCCGAGCTCTGAAACCTCCTCATGTGatTTTGGTTCATGGAGAGCAGAATGAAATGGCTCGGTTGAAGGCTGCGCTGATCCGAGAGTATGAGGACAATGATGAGGTTCACATTGAGGTGCACAATCCTCGAAACACAGAGGCTGTCACACTCAACTTCAGAGGAGAGAAACTGGCCAAGGTGATGGGCTCTCTTGCGGATAAGAAGTGTTCACAGGGTCAGAGAGTCTCCGGGATCCTGGTGAAAAAGAACTTCAGTTACCACATCCTCTCTCCTTCTGACCTCTCTAATTACACTGATCTTGCCATGAGCACGGTGAAACAGACTCAAGCCATTCCCTTCACTGGCCCTTTTCCCTTGCTGTTGAGTCAGTTACGTCACCTGACAGGTGATGTAGAGGAGATTGAGATGTCAGAGAAGAGCACAGTGAAAGTCTTTAACAGCATCACAGTGATTCATGAGAACAACTTGGTGGTTTTGGAGTGGTTTGCCAATCCTCTGAATGACATGTACGCCGATGCCGTCACCACAGTGGTTCTGGAAGTGCAGTCAAACCCCAAAGCTCAGAAAGCTCTTCAGCCCCAAGAAAAGAAAGTGGATGTAAATGTTTTTCAGAATAGACTACTGAAAATGTTCCAAGACATGTTTGGAGAGGAGTGTGTCGACTTTAAAGACAAGAACTGTCTCGCCGTGAATGTAGATGAGAAGACGGCCTTCATTGACCTGGAAACAAGAACGGTGGAGTATGAAGAGCCCAATCCTGAAGATGATTCTCTCAGAGAAATGCTGGAGCTCGCCGTACAGAGGCTGTATGAAGCCATAAACCCAGTGTTGTGAGATGACATCTGCCCTCTCTCAGGCTATTCACTTCCCACAAAAACTGTTGATATCAGAGTCCTTTAACTTAAACTATTAAGCCAGACTGAAGAAGACACCAGATACTGAACTGGACAAAGCACTTCAAATGAAAgtgtaataaaaaaaggaaaacagttTACGGTGTATGTTGATGCTTGTCTTTTTCCAGGTCTGTCAATTATACAATAGCCTAAACTGTGATTGTTTGGTATGTTGTTTTTTCTAAGTTGTTTTGTTTAAGTTGTAATTGGTTTAAAATCAGTgcatttgctttaataaatgaGGTCTTTGAAGTACGAATGTGCTCTATGCTTTTGATAATATCGTAACTGTTTTAATATCAAATAATACAGTTGGAATAATAATT

Function

GO:

id name namespace
GO:0006378 mRNA polyadenylation biological_process
GO:0006398 mRNA 3'-end processing by stem-loop binding and cleavage biological_process
GO:0005847 mRNA cleavage and polyadenylation specificity factor complex cellular_component
GO:0008409 5'-3' exonuclease activity molecular_function
GO:0004521 endoribonuclease activity molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko03015 mRNA surveillance pathway
ko03021 Transcription machinery
ko03019 Messenger RNA biogenesis

ZFIN:

id description
ZDB-GENE-030131-3275 Predicted to enable 5'-3' exonuclease activity; RNA binding activity; and endoribonuclease activity. Predicted to be involved in mRNA 3'-end processing by stem-loop binding activity and cleavage and mRNA polyadenylation. Predicted to act upstream of or within mRNA processing. Predicted to be located in nucleus. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human CPSF3 (cleavage and polyadenylation specific factor 3).

Ensembl:

ensembl_id ENSDART00000040292

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00035793 lncRNA downstream 89989 29527191 ~ 29529831 (-) True XLOC_018153
TCONS_00035778 lncRNA downstream 145325 29473587 ~ 29474495 (-) True XLOC_018148
TCONS_00036478 lncRNA downstream 190358 29426938 ~ 29429462 (-) True XLOC_018147
TCONS_00036854 lncRNA downstream 755938 28860442 ~ 28863882 (-) True XLOC_018140
TCONS_00035758 lncRNA downstream 777330 28835369 ~ 28842490 (-) True XLOC_018139
TCONS_00036855 lncRNA upstream 54128 29687635 ~ 29689408 (-) False XLOC_018156
TCONS_00035800 lncRNA upstream 54128 29687635 ~ 29691465 (-) True XLOC_018156
TCONS_00036856 lncRNA upstream 156435 29789942 ~ 29834538 (-) True XLOC_018158
TCONS_00036857 lncRNA upstream 293678 29927185 ~ 29933758 (-) True XLOC_018160
TCONS_00036479 lncRNA upstream 400051 30033558 ~ 30035310 (-) True XLOC_018161
TCONS_00035791 mRNA downstream 86810 29513470 ~ 29533010 (-) False XLOC_018153
TCONS_00035792 mRNA downstream 86881 29513474 ~ 29532939 (-) False XLOC_018153
TCONS_00035790 mRNA downstream 113957 29502065 ~ 29505863 (-) True XLOC_018152
TCONS_00035789 mRNA downstream 120446 29495486 ~ 29499374 (-) True XLOC_018150
TCONS_00035786 mRNA downstream 120457 29494916 ~ 29499363 (-) False XLOC_018150
TCONS_00035798 mRNA upstream 43367 29676874 ~ 29683783 (-) False XLOC_018155
TCONS_00035797 mRNA upstream 43367 29676874 ~ 29683783 (-) False XLOC_018155
TCONS_00035799 mRNA upstream 44951 29678458 ~ 29683754 (-) True XLOC_018155
TCONS_00035801 mRNA upstream 151420 29784927 ~ 29787192 (-) False XLOC_018157
TCONS_00035802 mRNA upstream 151423 29784930 ~ 29787210 (-) True XLOC_018157
TCONS_00035788 other downstream 124385 29495300 ~ 29495435 (-) True XLOC_018151
TCONS_00035770 other downstream 569775 29047183 ~ 29050045 (-) True XLOC_018144
TCONS_00035760 other downstream 743946 28871885 ~ 28875874 (-) False XLOC_018141
TCONS_00035753 other downstream 777249 28832762 ~ 28842571 (-) False XLOC_018139
TCONS_00035747 other downstream 1007498 28611272 ~ 28612322 (-) True XLOC_018136
TCONS_00035811 other upstream 739156 30372663 ~ 30372883 (-) True XLOC_018166
TCONS_00035812 other upstream 739700 30373207 ~ 30373427 (-) True XLOC_018167
TCONS_00035813 other upstream 740358 30373865 ~ 30374084 (-) True XLOC_018168
TCONS_00035814 other upstream 741179 30374686 ~ 30374906 (-) True XLOC_018169
TCONS_00035824 other upstream 1411568 31045075 ~ 31045205 (-) True XLOC_018178

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000325_07067703_07076510.mRNA True 1872 mRNA 0.49 16 CI01000325 7067703 ~ 7076510 (-)
bowfin (Amia calva) AMCG00003539 True 2764 mRNA 0.51 18 CM030121.1 8965711 ~ 8977843 (+)