RNA id: TCONS_00007176


Basic Information

Item Value
RNA id TCONS_00007176
length 6993
RNA type mRNA
GC content 0.41
exon number 13
gene id XLOC_003705
representative False

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 42726712 ~ 42819730 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATGCCTGATGTCAACACCTGTGTATCAGCCAACAGgtaCCTTACAGATGAAGGAATCGAGGAGTGTAAAAGTTCTTCAGAGAAGGAGAAAACATCACCCACTGACATCATACAAGTAGCACTAAACAATGATCTGAGACCCATCGGGAAGAGCTTTCTCCCAGCGGACATCAACAGCGGACGGATAGAAAAGTTGGAGGGTCCGTGTGTCCTGCAGGTGCAGAAGATTCGTAATGTCGCCGCATCTAAAGACCACGAGGAGTCGCAGGCGGCACCCAGAATGCTGCGGGTGCAGATGACAGACGGACACACCGCATGCACAGGCCTGGAGTTCAAACAACTGTCCAAAATCAGTTTAAACACGCCACCTGGAACCAAAGTGAAGCTCCTGGGGGTGGTTCAGGTGAAAAATGGCATCCTGCTATTGGACGATTCCAAGATCGCCGTTCTTGGAGGGGAAGTGGATCACATGATCGAGAAATGGGAGTTTCAGAGGagCCTCGCCAAACACAGCCGGAGAAACATTGGAGCTGAAGGTGGACCTCCTCCGTTCGTTCCCTTCGGACAGAAATGTGTTCATAAGGAGCAGGTGGACAGCAGAGCTCTGGATCAGAGGAAGACGCTTCAGAGCACGAACGCCGTCAAATCAGCAGACGACAACGATGAGTTTGAGAAACAGAGAACCGCTGCTATTGCTGAGGTGGCCAAGAGTAAAGAGaCGCGTACGTTCGGTGGGGGAGGAAATGCAGGAGGAAACCTCGCAAATCCAGGATCATCTTTCAAGAGCCGGGACACGTATCAAAgaaagagagaggagagagaaaaACCCTGGACGGAAAACAAGTCAGACGGAGTTTACAGAGATCTGGTTGATGAGCGAGCTTTGAGGGACATCATGGAGATGGGCTTTAACCGAGAGGCGGCCAGACAGGCTCTGCTAGATAACAATAATAACCTTGAAGTGGCCCTTAACCTCCTGCTAACCAGAGCAAACCAGCCCAGAGCAGCCCCAGTGGAGCAGAGCCGCCCGCCGCCCCGAGGAAAGGGTCGAGGAAAGGGACGCTCCAGACAAGATGAGGATGAGGAAGCTGGAGGAAGACCGTCTGGACCCAGCACTCTGTTTGACTTCCTGGAGTCCAAAATGGGGACGTTCTCCATTGACGACTCAAAGCCTTCACAACAAGACCACCAAACCAAGATGAACTTCTCTAACTCTGATCAAATGTCCAGAGATGCAGGACAGTTTAAACCTCCTCCCCGAAACGATGGAAGATCACAGAGAAACGACAGACCTCCACGTTTCCAGAAAGACGGAGACTTTCCCAAACCCACCCCAGCCTCGTCCAGCTTCTCCCAGCCGCAGAAATGGAGGGACGGAGAGCGAACGGGACGAGGAGGAGGACCAGAGCGATGGAAAAACGAGAGTCAGGATGCTAGAAATGCACCGTTATCATACAACTCCAGCTTCTCCAAGTCCAGAGAGCAGCAGGGTGCGTCTGGAAAGGAGCTTAATAAAGAGCAGGATGGCACAGGACCTGCTTCATTTAGGAAAAACCAATCAAACGGACCTGCGCCACCCAAATTCTCAACCCCTGCTGATCCCAAAATGAGAAATGAGCCGAACAACAGAAGGAAAGGCAGGCCGGAAAGACCCAATTCAGGGTACTTTGAGCATTCCCAGGATGCATTGGGAAAAAAAGACTTTCAGGATGAAGGTCAGTTTGTTAAAGTGGGCCCAGTTTCAAACACGCCGCTTCCTAATGGGGATTTAGAACACAGACGAACTGGTCCAATCAAACCACATTTTTCAGCCCCGCCTCCAAGGCAAACAAATATGCATAACCCCGCCTCCAAGAGGAGATCTGGCCCAATCAAAGGTCCGAGAGACTCGGTGGACATAAATAATTTTGTGAACTGGAAAGCGGGTGATCAGTGTCTGGCGCTCTACTGGGAAGACAATAAGTTTTACCGGGCGAGAATCGACGCTGTCCACCCCTCGGGCTCCACGGCtgtggttgttttcagcgactACGGAAATTGCGAAGAAGTTCTGCTTGACAGCATCAAACCTCTGCACATGGATGTATGGGATGATGAAGATATTTACTATGAAAATTCTCTTGAGTTTCGAAGAGGAGGAGATGGACAACCTCGACGCTCTCGACCGACACAACAATATTACCAACCGCCTCGTGCAagagactgacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacacaaacctttcCCTAGCGTTTGATttgctcaagaaaaaaaaaacaactaatgctcttctggtaaacacaaacacacttatgtCAGGTCTAGCGCAGGTTTACGGCTGTTACTTTAGGCCCTTTTAGCATCGTGTAGATACTGTAGAACAATATAAATGCAACATGATGTTCTCTCCCTATGCAGGTAATCATCATCTCGTTATCCACAAGTAAACGACTCTAATTGGAGAAAATGACATGCGGTTTGTATCATTATTGACGGCTGAATATATGGCAAATGCTGACAGCGTGAATGTTTCCTGAATTGTTTTGATTTGTGATTATTTTCATGGAAATGAagccctaattattattattacaattacaaaagaagtaaaatatttattttatttgtttatcttgaTTCAATCACATTATTTTCCATAATTTGATACGATTGaccatattttttatataaaaaatacagataTTATGGTCAGACTTTAAAGTAAGTTCCattggttaatgtatttactaacaagaaCAGTATATTACAGTAGTTTTTGTTAATATAAAGTCATTCATTGCTAATTAAACTCACAGTGCACTAATGTCTGGATTttcataatgcattagtaaatgttgaactgtgcttaattaatgctgtacatgtattgtttattattagctCATGTTAGTCAATACATTAATGTTAATGAAACTTTGCGCCAATGTGACCAAAAACATTTGCAGAAAAGATTACAATTATAGTTCTGAGGATCCTTAaaggaacaaattattttaaaaagaaagataaatactcattttacagctctcctACATTAAAAACGTTgagttttacagattttttttatccattcagaCAATCTCTGGGTCTGACTGGAgcttttttagcttagcttagcttagcataaatcattgaatcggattagaccattagcatctcactttaaAAAAGGCGTTTAAATCTTTGCACTGTGTACCAAAAGTAGTATTTTCTATTAATTCTTCTATTTACTTCAGGGCAGTTCCTGAATCATATATATTTGAACCAGATTACATGTATGCTCGCCTATTTTTAGGTGCTGTGTAAAATATCATTACACTGCTGTAGTTATGGTGCAGCAGTAAAGTTCCTTAATTATTACGCCACAATGATAGTATAATTGCTTGGCCTACAAATAAGCAACTTTTCGTTTTAGGAAAAAACAGTCAAACGAGCGACTTTCAGGATGAAGGTCAGTTTGTTAAAGTGGGCCGAGTTTCAAACACGCCGCTTCCTAATGGGGATTTAGAACACACGAACTGGTCCAATCAAACCACAGTTTTCAGCCCCGCCTCCAAGGTACAATAATATGCATAACCCCGTCCCCGAGAGAAGATCTGGCCCAATCAAAGCTTTGAGAGACTCCGTAGACATAAATAATTATGTGAACTGGAAAACGGGTGATCAGTGTCTGGTCTCTTTTCTTGTAATAATGATATTTACTTGAGTGCAGTTCCTGAATCGTATCAATTTGAACTAGAATACTTGGAGGTTAGCCGATTTTCAGGTGCTATCTAAAATATCATTGCACTGCTTTCTAATGGGCATTTAGATCACAGACGAACTGGTCCGATCAAACCACAGTTTTCAGACCCACCTCCAAGGCAGACTAATATGCATAACCCCACCCCCAAGAGGAGATCTGGCCCAATCAAAGCTCAGAGAGACTTTGTAGACATAAATAATTATGTGAGCTGGAAAGAGGGTGATCAGTGCTATCTAAAATTTCATTGCACTGCTGTAGTTACGGTGCTGCAGTAAAGTTTCTTGATGAGTACGCCACAATGATAGGATAGTTTGCAGGCATATCaatctagaaaatagcaacttctcATTCTCAGTCTCAGTACTCTGGTTTATTGGATTTACTTCATTTTGTTAAGTTAACTGGTTGCACATGattcatatgggctgaatttaaacaagcaaattaaattgagtaatgtttaacattgtttaaattcagctcatttacctttaaaaattttttagtaaatccagtgtatatatttttttaatgtgcactATCTAGGTACAGAAGTATCCAGCTTTGAATAGGAATAATATCGAAACTCTTGTCATTTTTCGAGCAAGATTCTAATAGTCTTATTCGATTAAATGTTCTATGCCAAGTTAAAAGTGACCCAgagattgtatatatatataataatgattatataatGATAAATGCTCAAATGTTTAACTCTTGAGGTGTAAAATAAGCCCATTTCCAAGATAAGTGtggtgttcctttaaaaaaaaaacaattgtttttagtGCATCATTTCTggactttgtttgtttgtttgatttgggGCTGTCGTGAGACTCACTCTATGGGCATTTGCACAAGTGATTTCATATCTGTAATGACGGTGATTTGGTTTCACGCTCGGGTTATCCTGTGTGAGGTTATCACTCGCTTCGTGCACGGTAAAAAGGAAACAACAAGTTGTTTGTTGTCAGACTTACCATCTGATCTCTGGCAAAAGAGATGAAAGAACAACATATCTGCAGTGTGTgatctgtgtgtgtctgcatgggCGACAGTTCGGAAGGGCTCGCAGCACATCAGTCAACCTGGACTCTGCAAAACAGCTGCTGGACACGGTCACTGTTTGTAAAGGACttgatttaaatgattataaaagtGCTATGCTCTTTTCTTCAACGCTCACTGCCTCATTTGGTTTCTTATTGCTGTTTTGGTTTGTCTTAAAGGGGGATTAGTATTGAAAGGAGTCATTTCTATGTGAATTGAGCACATTCAGTTCAGTTTACATGTAGATTTGTCAATGGATGACTTAATTATTTTCCCTTCCACAGATTCAGGACAAAATGAATATTCCTcgtgttgtttttgtcatttacaAATAGTCTAAACATCCTAAATCATGGATTTAGATGTAAAATGAACGCCATGCACTTTAAAAAGTGATcatttgactttaaaaagtgattaaaccTGTTGCtattaaaagcaattagttgattttactttgaaaaaattaagtaaattcatTGCCTTAACATTAGGTAAATTAactacactcactggtcactttattaggtacactttactagtactgggttggtccccctttgccttcagaacttcagagcattgtcatgttcaagaaactagtctgagatgattcacgctttatgatttggtactaatgggccaaaagtgtgtcaagaaaaatctcccccacaccattacaccaccaccagcagcagcctgaactgttgatacaaggcaggatggatccatactttcatgttgttgatgccaaattctgacccgaccatccgaatgtggcagcagaaatggagactcatcagagcaggcaacgtttctccaatcttctattgtccagttttggtgagtctgtgtgatttgtagtctcagtttcctgttcttagctgacaggagcggcacccggtgtggtcttctgctgctgtagcccatccgcctcaaggttggacgtgttgtgtgttcagagatgctcttctgcagacctcggttgtaacgagtgcttatttgagttactgttgcctttctatcagctggaaccagtctggccattctcctctgacctctggcatcattaacgaggcatttgtgcccacagaactgccacttactggatatttcctctttttttagaccattctttgtaaactctagagatggttgtgcgtggaaatcccagtagatcagcagtttctgaaatactcagagcagcccgtctggcacaaacaaccatgccacgttcaaagtcacttaaatcccctttcttccccattctgatgctcgctttgaactgcagcagatcctcttgaccatgtttacatgcctaaatgctttgagttgctgccatgtgattggctgattagaaatttgcattaatgagtaGTTAGACAGATGTACCTAAAAAGTGTCCGGTTAGTGTATATGcaaaattataaaacatttagtCAACTTTCAGGTTGCatagtaaagtcaacttgtcatttttacagtgtattttcttGGAAACAAAGTATGTTTATGTTGAAAACAAGAGCAGATCTGATAGTGggaaatgaaaacatttttcttgTTATTGAACTGATTTGTTCTTCCTTGATTTAATCATTATCTAACTACCTTTGAGTCACGTTAACAGTTATTACGTCATTTTGATTTTCATGTAAATGTATCTTTATTTAAGAGTCTTTAGGCCTTtgttcttaaaaacaaaacaactaattcagaggaactgttttttttttttgcaggaggTCTTGTGTTTGACATTTGTCATTGTCTTTTAGATTGAGAGATCATGTTGACGCTGTGatccagtttagtttattttcagctcttaaactttaataacttttatggtaaaatgttttttttttcccaaatagagattttattctttaaaacaagTATTAAATGAAGCATAATATAACTACTTTTACAAACAGATTAATGCCCAATAGGCTAATTTGATGTACTAAATTATCATATAAACTAATGAAGcctaaatacaaataaactactaaaatgaAAAAACACTAAATTAAGTAAAGTTAACTCAACCATCAGTTAAAGCACGCATCATTGCTAATTTCATCAATCTATTTTGTAACttaatgtttaatgtaatgtaaaagctttattttttta

Function

GO:

id name namespace
GO:0006325 chromatin organization biological_process
GO:0006397 mRNA processing biological_process
GO:0005634 nucleus cellular_component
GO:0035145 exon-exon junction complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0035064 methylated histone binding molecular_function
GO:0003682 chromatin binding molecular_function
GO:0003713 transcription coactivator activity molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko03019 Messenger RNA biogenesis
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-040426-19 Predicted to enable chromatin binding activity; methylated histone binding activity; and transcription coactivator activity. Predicted to act upstream of or within chromatin organization and mRNA processing. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human TDRD3 (tudor domain containing 3).

Ensembl:

ensembl_id ENSDART00000028955

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00007166 lncRNA upstream 153730 42572242 ~ 42572982 (+) True XLOC_003700
TCONS_00007156 lncRNA upstream 308338 42305089 ~ 42418374 (+) True XLOC_003693
TCONS_00008428 lncRNA upstream 594805 42127415 ~ 42131907 (+) True XLOC_003692
TCONS_00008427 lncRNA upstream 628421 42098047 ~ 42098291 (+) True XLOC_003691
TCONS_00008426 lncRNA upstream 657048 42057856 ~ 42069664 (+) True XLOC_003689
TCONS_00008687 lncRNA downstream 20120 42839850 ~ 42844948 (+) False XLOC_003707
TCONS_00008688 lncRNA downstream 20124 42839854 ~ 42883298 (+) False XLOC_003707
TCONS_00008689 lncRNA downstream 20126 42839856 ~ 42841508 (+) False XLOC_003707
TCONS_00008690 lncRNA downstream 20136 42839866 ~ 42844948 (+) False XLOC_003707
TCONS_00007180 lncRNA downstream 20137 42839867 ~ 42841508 (+) True XLOC_003707
TCONS_00007174 mRNA upstream 4054 42641404 ~ 42722658 (+) False XLOC_003704
TCONS_00007175 mRNA upstream 7353 42641469 ~ 42719359 (+) True XLOC_003704
TCONS_00007170 mRNA upstream 91272 42600731 ~ 42635440 (+) False XLOC_003702
TCONS_00007169 mRNA upstream 91272 42600731 ~ 42635440 (+) False XLOC_003702
TCONS_00007173 mRNA upstream 91992 42633376 ~ 42634720 (+) True XLOC_003702
TCONS_00007181 mRNA downstream 223441 43043171 ~ 43048021 (+) True XLOC_003708
TCONS_00007184 mRNA downstream 294378 43114108 ~ 43116249 (+) True XLOC_003711
TCONS_00007186 mRNA downstream 543345 43363075 ~ 43368382 (+) True XLOC_003713
TCONS_00007187 mRNA downstream 555596 43375326 ~ 43388063 (+) True XLOC_003714
TCONS_00007188 mRNA downstream 581471 43401201 ~ 43414172 (+) False XLOC_003715
TCONS_00007172 other upstream 101225 42625371 ~ 42625487 (+) True XLOC_003703
TCONS_00007149 other upstream 1261476 41465107 ~ 41465236 (+) True XLOC_003680
TCONS_00007137 other upstream 1568784 41110669 ~ 41157928 (+) False XLOC_003675
TCONS_00007139 other upstream 1568786 41135609 ~ 41157926 (+) True XLOC_003675
TCONS_00007131 other upstream 1837418 40889180 ~ 40889294 (+) True XLOC_003670
TCONS_00007182 other downstream 225096 43044826 ~ 43044949 (+) True XLOC_003709
TCONS_00007198 other downstream 1205032 44024762 ~ 44024878 (+) True XLOC_003725
TCONS_00007203 other downstream 1505031 44324761 ~ 44326292 (+) False XLOC_003732
TCONS_00007204 other downstream 1505031 44324761 ~ 44334911 (+) False XLOC_003732
TCONS_00007205 other downstream 1509044 44328774 ~ 44335322 (+) True XLOC_003732

Expression Profile

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