RNA id: TCONS_00016734


Basic Information

Item Value
RNA id TCONS_00016734
length 751
lncRNA type retained_intron
GC content 0.42
exon number 3
gene id XLOC_008345
representative True

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 11683089 ~ 11691460 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

aattggTGCAGAAATGGCGGCCGGTTATATTCAAAGGTTCCCCTCAAAGCGGTGTTTCGAACGTAATTTTAAGAGTTATGTACATGACACGATGACAAAGTTCGTCGTTTGGACAAAAGACAGGTCTTTCGGTGTGGAGGATCCCAAACTAGGATCCAAATGTATTGTATGGGAACTCCAATACGTTCCTTTTGACGGGATACCCTTTATGTTGGTGGGAAGGATGGTCTACTCCTGTCACCGAGGCGCAGACAAGCACAAACACCAAAAACAGAAGAGACAGGAACAGCTGCTTGATGACAGCTCAGACCATAGTAATAAAGAGAAGCGACGTCGTCTCCGGGTCTCCAAGAAACTGGACTGTCCAGCCAGAATATACGTGGTCCATTTAATCAGATTCCCTGATTACAAGGttttttggtttttatatttcttatataATCGAACTAAATAACTGTAAACAAACATTCTTAAACTGGGATGTTGTTTTCTGTTATAATTTCAAGTAATACCAGTTTTATAATTTTAGTGCCCTGAACTTTTAATGCCTAGAGCATAGGTCTCAAgcttgattcctggagggccgcagctctgcacagttttgttccaaccctaataaaacacagcTGGTCCAAATAATctgtgttcaagactactagagactataaAGCAGATGTGAGTTGGAGATGGTTGAAGCTacactatgcagagctgcagctctccaggaattgagttttgGTCCATTGGCCTA

Function

GO:

id name namespace
GO:0044085 cellular component biogenesis biological_process
GO:0016070 RNA metabolic process biological_process
GO:0016071 mRNA metabolic process biological_process
GO:0016072 rRNA metabolic process biological_process
GO:0071826 ribonucleoprotein complex subunit organization biological_process
GO:0022613 ribonucleoprotein complex biogenesis biological_process
GO:0034470 ncRNA processing biological_process
GO:0006364 rRNA processing biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0006396 RNA processing biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:0010467 gene expression biological_process
GO:0042254 ribosome biogenesis biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0034660 ncRNA metabolic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0008380 RNA splicing biological_process
GO:0030684 preribosome cellular_component
GO:0032040 small-subunit processome cellular_component
GO:0044422 obsolete organelle part cellular_component
GO:0044424 obsolete intracellular part cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0044428 obsolete nuclear part cellular_component
GO:0070013 intracellular organelle lumen cellular_component
GO:0044446 obsolete intracellular organelle part cellular_component
GO:0044451 obsolete nucleoplasm part cellular_component
GO:0044452 obsolete nucleolar 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:0005665 RNA polymerase II, core complex cellular_component
GO:1902494 catalytic complex cellular_component
GO:0031974 membrane-enclosed lumen 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:0005730 nucleolus cellular_component
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko00230 Purine metabolism
ko00240 Pyrimidine metabolism
ko03020 RNA polymerase
ko03230 Viral genome structure
ko04623 Cytosolic DNA-sensing pathway
ko05164 Influenza A
ko05169 Epstein-Barr virus infection
ko05016 Huntington disease
ko03200 Viral proteins

ZFIN:

id description
ZDB-GENE-141222-57 Predicted to enable DNA-binding transcription factor activity. Predicted to act upstream of or within positive regulation of transcription from RNA polymerase II promoter in response to calcium ion.

Ensembl:

ensembl_id ENSDART00000163844

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00016728 lncRNA upstream 378046 11303325 ~ 11305074 (+) True XLOC_008340
TCONS_00016727 lncRNA upstream 816560 10863850 ~ 10866560 (+) False XLOC_008339
TCONS_00018761 lncRNA upstream 816560 10864010 ~ 10866560 (+) True XLOC_008339
TCONS_00016726 lncRNA upstream 928355 10752132 ~ 10754765 (+) False XLOC_008338
TCONS_00016741 lncRNA downstream 295666 11982450 ~ 11985783 (+) False XLOC_008350
TCONS_00018892 lncRNA downstream 295666 11982450 ~ 11986634 (+) False XLOC_008350
TCONS_00016742 lncRNA downstream 296237 11983021 ~ 11985807 (+) False XLOC_008350
TCONS_00016743 lncRNA downstream 296237 11983021 ~ 11986634 (+) False XLOC_008350
TCONS_00016744 lncRNA downstream 296362 11983146 ~ 11985958 (+) False XLOC_008350
TCONS_00016732 mRNA upstream 11947 11643659 ~ 11671173 (+) True XLOC_008344
TCONS_00016730 mRNA upstream 239906 11427620 ~ 11443214 (+) True XLOC_008342
TCONS_00016729 mRNA upstream 288798 11381532 ~ 11394322 (+) True XLOC_008341
TCONS_00016717 mRNA upstream 1809976 9861973 ~ 9873144 (+) True XLOC_008333
TCONS_00016714 mRNA upstream 2295330 9387350 ~ 9387790 (+) True XLOC_008328
TCONS_00016736 mRNA downstream 6840 11693624 ~ 11757647 (+) False XLOC_008346
TCONS_00016735 mRNA downstream 6840 11693624 ~ 11757647 (+) True XLOC_008346
TCONS_00016737 mRNA downstream 128185 11814969 ~ 11820549 (+) True XLOC_008347
TCONS_00016738 mRNA downstream 138582 11825366 ~ 11870530 (+) False XLOC_008348
TCONS_00016739 mRNA downstream 153527 11840311 ~ 11875820 (+) True XLOC_008348
TCONS_00016731 other upstream 117611 11565391 ~ 11565509 (+) True XLOC_008343
TCONS_00016719 other upstream 1787134 9895858 ~ 9895986 (+) True XLOC_008335
TCONS_00016712 other upstream 2371642 9303809 ~ 9311478 (+) True XLOC_008326
TCONS_00016703 other upstream 2643956 9039050 ~ 9039164 (+) True XLOC_008321
TCONS_00016700 other upstream 2951254 8731752 ~ 8731866 (+) True XLOC_008318
TCONS_00016757 other downstream 1838090 13524874 ~ 13524988 (+) True XLOC_008360
TCONS_00016758 other downstream 2270938 13957722 ~ 13957850 (+) True XLOC_008361
TCONS_00016791 other downstream 3707458 15394242 ~ 15401640 (+) True XLOC_008381
TCONS_00016809 other downstream 4832183 16518967 ~ 16519083 (+) True XLOC_008398
TCONS_00016813 other downstream 5142978 16829762 ~ 16829876 (+) True XLOC_008400

Expression Profile

//