RNA id: TCONS_00071327


Basic Information

Item Value
RNA id TCONS_00071327
length 2843
RNA type mRNA
GC content 0.45
exon number 12
gene id XLOC_036504
representative False

Chromosome Information

Item Value
chromosome id NC_007119.7
NCBI id CM002892.2
chromosome length 54304671
location 28241100 ~ 28259779 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CGCAAACAAAACAGATAAGTGAAGAAGAACCGAGCCGGTGAAACGCGCACTAATTTGTTCATAACGCGAAGATACAATAATTACATACACGTACATATCAAAGAATACTGTTAACACAGAACCACACCTGTGCTGTGAAAGTAAGTGCCGATTAAGATCAAGAAAATCTCACCAGTTCATTTCTTAGACGATGAAGGTTGCTCTTCATGTCATCGATATCCGTTTTCCCTTCCTCCATGTTTGCCGACATAACGTTACagaatgaaattattttaatgcTACAAGCAGGTTGATTGATTTAAATCTCCATCCAATTTGATGTCGCTGCCGCTAAGATCTTTGGTTTCCTTCGCTTTAGTTTCAGGACGTGGCTCGATATTCCAGGCAGCGGTTCTGTATGTGTGCGCAGGAGGGCGCAGTGATTCACAGCTCATGTCATTTATTCACCGTAGAAGAAACAGAACGTTGTCGCGATAGAAACATGGCGGCATCTGTGAAAGCAGCGCATGAGCTGCAATCGAGAACCCGGACGGATGATGTTTTGATTAGCGGCGGTGTCGAGTTCAGCTCTTTACTCCTCTCAAAACCCGTGCTTGAGGGTTTATCTGCTTCCGGTTTTCAGAGACCCTCTCCCATCCAGCTAAAGGCAATCCCGCTGGGAAGATGTGGACTCGATCTAATTGTTCAAGCCAAATCTGGCACAGGAAAGACCTGTGTGTTCACCACCATCGCCTTGGACTCTCTTATATTGGAAAACGCAACTACACAGGTGCTGGTTTTGGCCCCCACTCGGGAGATTGCAGTGCAGATTCACGCTGTTGTCATGGCGATAGGCAGTGCTATGGAGGGTTTGGAGTGCCATGTGTTCATTGGTGGTCGACCTATCAGTCAAGATAAACAGCACCTGAAGAAGTGCCACATTGCTATTGGGTCACCAGGTCGTATTAAGCAGCTAATTGAGATGGGAGCCCTGATGGTGTCCTCCATTCGCTTGTTTGTTTTGGATGAGGCTGATAAACTCCTGGAGGACGACAGCAGCAGCAGCTTTCAGGAGCAGATCAACTGGATCTACTCCTCTCTaccagcaaataaacaaatgttggcTCTTTCTGCCACCTACCCAGAGTCTTTAGCACAACAGTTGTCAAGATACATGAGAGAGCCCACGTTTGTGCGACTGAACCCAACTGACCCTGGACTCCTCGGACTGAAGCAGTATTATAAGATTGTGCCATCTCATTCATTGCCTCATAAAGTTTTTGAGGAGAAGGTGCAGAGTCTTCTTGAACTCTTCAGTAAAATCCCATTTAACCAAGCGCTGGTGTTCTCGAATCTTCATACAGCTCAGCATCTGGCAGATATCCTCTCCTCTAAAGGTTTGCCTGCAGTCTGCATCTCAGGTGGTTTAAGTCAGGATCAGAGGTTAGAGGCGATGTGGAAGCTGAAGCAGTATCAGTGTCGAGTTTTAATATCCACTGATTTGACGTCACGTGGAATTGATGCTGAGAAGGTGAACTTGGTGATTAATCTGGACGTTCCTCAGGACTGGGAGACCTACATGCACCGTATTGGTCGTGCTGGACGTTTTGGTACTCTGGGGGTTGCCGTGACCTACTGTTGCCATGGGGAGGAGGAGAACAAGATGATGGCCATCGCTCAGAAGTGCTCTCTGGATCTCATGCATTTACCAGATCCAATACCTCCAGGCATCATGGAAGAAGCGTGTGACCATGATGTGATCATAGAAACTCTTTCAAAACCAAAGATTCCTGACAATTTCAAAccagagaagaagaaaaaggCTAAATCAGAACAGATGAAGTCTAAACCCTCTAGAGAGTCTCACATCTCTGTGGTCATCACAGAAAGCGTGACCGGTGACAAATCATGCAGTCGAGCTGAAACCAAGACTAAAAATCATTCTTCCAAACCTGGGAGGCAAAAACAAATGGCGCCTGCTGCAAACCTCCAACATGACTCGACTATTACTCAGAAACAGCAGAATGACACCCTTCCCAAAATTCCTCCTTTGTCATCCTTTAAGTCGCACACAGGGAAGAGAATAACCTTCGACGATGCTTTGGTGGATTATGAGACCTTTATAAGAGAAGGTCCGGGAAGATCTGTTGAAATCATTCACCAGTATGATGGTTTCTACAGGAGTCAAGATAAAGTTAATGGTCTTCATGACGCCCATGATGAAGATGAGGCTTCTGAATCATACGTTCTAGAAGAATCACAGTCCCATCAAGATCTTCCACCAGCGCAGGAGGTTTCAGAGTTGTCCTCAGAGCAGAAGACATCTAGTGAATCCTCTTCTGAGTCTGAGATGGAAGTGGAGAGTGAATCAAGCTCTTCTGTGCCTAGCAAGTCTACACTTGAAGCACTTCCAGATAATAAAGTTTCGCTTGTACGTAATCATTCAGAATTAGCTGAATTAGCTTTACCTTCAACCAGAGTACCACAACAGGCCACCAGAAGCAAGAAAAGGCCATGTCAGCCTCAATCCCAGGACACCGCTCACCATCACAATCTTCCTCATAAACACCGAACAGCCTCCAAATCTAGCCGGAGGCCAACAGGACCAAAGCGGAGAACAAGAGAGACTGATGAGACTGAGGAGGAAGAGGCTGGACAGGATTATTGGAGCTCGTACAGGGCCTGGGCTGAATATTACAATTCATATTATCACCATTCGCCCTATAATTGGATGACTGCGTTTTATATGAATTCTGTGTACATAAAGGAAATGATGAAGCACTAGAAAAGTCAATCTTTGTAATGTtcctaaatgtattttatacatattcCTGTAGCTCCCCAATAAAGATGAGTTCCTAACA

Function

GO:

id name namespace
GO:0006397 mRNA processing biological_process
GO:0000387 spliceosomal snRNP assembly biological_process
GO:0008380 RNA splicing biological_process
GO:0005829 cytosol cellular_component
GO:0005634 nucleus cellular_component
GO:0032797 SMN complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005524 ATP binding molecular_function
GO:0016787 hydrolase activity molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0000166 nucleotide binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0003724 RNA helicase activity molecular_function
GO:0004386 helicase activity molecular_function

KEGG:

id description
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-030131-202 Predicted to enable RNA binding activity and RNA helicase activity. Predicted to be involved in spliceosomal snRNP assembly. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in cytosol. Predicted to be part of SMN complex. Orthologous to human DDX20 (DEAD-box helicase 20).

Ensembl:

ensembl_id ENSDART00000087037

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00072475 lncRNA downstream 14870 28169137 ~ 28228356 (-) False XLOC_036503
TCONS_00071325 lncRNA downstream 14881 28223652 ~ 28228345 (-) True XLOC_036503
TCONS_00071324 lncRNA downstream 14963 28207354 ~ 28228263 (-) False XLOC_036503
TCONS_00072063 lncRNA downstream 669143 27551556 ~ 27574083 (-) False XLOC_036497
TCONS_00072064 lncRNA downstream 669183 27572547 ~ 27574043 (-) True XLOC_036497
TCONS_00072476 lncRNA upstream 202738 28462504 ~ 28465453 (-) True XLOC_036513
TCONS_00072477 lncRNA upstream 268563 28528329 ~ 28546676 (-) True XLOC_036514
TCONS_00072478 lncRNA upstream 467108 28726874 ~ 28728007 (-) True XLOC_036516
TCONS_00071345 lncRNA upstream 1321729 29581495 ~ 29635923 (-) True XLOC_036517
TCONS_00072065 lncRNA upstream 1431944 29691710 ~ 29693950 (-) True XLOC_036521
TCONS_00071323 mRNA downstream 384761 27824316 ~ 27858465 (-) True XLOC_036502
TCONS_00071319 mRNA downstream 384768 27823012 ~ 27858458 (-) False XLOC_036502
TCONS_00071321 mRNA downstream 393456 27823301 ~ 27849770 (-) False XLOC_036502
TCONS_00071320 mRNA downstream 393456 27823301 ~ 27849770 (-) False XLOC_036502
TCONS_00071317 mRNA downstream 556131 27659244 ~ 27687095 (-) True XLOC_036500
TCONS_00071331 mRNA upstream 7780 28267546 ~ 28274251 (-) False XLOC_036505
TCONS_00071332 mRNA upstream 7781 28267547 ~ 28274552 (-) True XLOC_036505
TCONS_00071334 mRNA upstream 37300 28297066 ~ 28304534 (-) True XLOC_036507
TCONS_00071335 mRNA upstream 45447 28305213 ~ 28342313 (-) False XLOC_036508
TCONS_00071336 mRNA upstream 46773 28306539 ~ 28339155 (-) False XLOC_036508
TCONS_00071322 other downstream 418049 27823381 ~ 27825177 (-) False XLOC_036502
TCONS_00071318 other downstream 515140 27727970 ~ 27728086 (-) True XLOC_036501
TCONS_00071315 other downstream 636273 27596435 ~ 27606953 (-) True XLOC_036498
TCONS_00071312 other downstream 1036304 27205292 ~ 27206922 (-) True XLOC_036495
TCONS_00071311 other downstream 1036667 27205246 ~ 27206559 (-) False XLOC_036495
TCONS_00071333 other upstream 34710 28294476 ~ 28295796 (-) True XLOC_036506
TCONS_00071349 other upstream 1428745 29688511 ~ 29698282 (-) True XLOC_036520
TCONS_00071360 other upstream 1902726 30162492 ~ 30162633 (-) True XLOC_036529
TCONS_00071361 other upstream 1907669 30167435 ~ 30167525 (-) True XLOC_036530
TCONS_00071362 other upstream 1907864 30167630 ~ 30167704 (-) True XLOC_036531

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000347_00442247_00450374.mRNA True 3918 mRNA 0.43 11 CI01000347 442158 ~ 451920 (-)