RNA id: TCONS_00031663


Basic Information

Item Value
RNA id TCONS_00031663
length 8456
RNA type mRNA
GC content 0.46
exon number 24
gene id XLOC_015980
representative False

Chromosome Information

Item Value
chromosome id NC_007113.7
NCBI id CM002886.2
chromosome length 59640629
location 56168619 ~ 56237133 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

tatacatatatatatatatatatacatacaacagttctgtctggttctcaaatctgattggctgatcgctgtgatatatttaagtaatatcagcacccgtacagcctctttacgctttgtgtattactccgcccacatacagccagcaaaaagcagacactacagatctaaagtttaaaagatgcacgctcaactgattaactgtcagcttatgatttgaatccaacgcggaagaaagtagttcctcatacaaaagggtttttaagactctccatgtttgatattgtttttatatacacaattatcccatcaaactgttgtataaacgcaatatcacactcgtagcagtgcgatattgctGTATATCGGCTGTATATATAGTAAAAGtgcaagtaaacaaaaataaagtactgAAGTTATAGGGCTTTTTTTTAATCAACGCATGAGTGACACATGCGTAACAATGCTAGGGGTCTACATAGAAATATATGAAGTGCATAACAGTGTTATATATAAGTAGAGAGACCcaataagtaaaacaaaacaaagtaaaacataaaataataacaaaaacaaatgtttaaacatCACAGTCGTGTGTGGACCAGCAATGTACATTTTTCACTTTACAACAAAATCACTTCACGGTCCTTAAAAAGGGTTAAACgagaaaagaaaaatgtaaataaattacaaatagaaGTCGCGTGTGGACGTAATCACGCTCTTTTGCGCGTCCGTCGCATGGCCCGTGACGTCAGCGCGCGTCGCGCTCTCCCGAGTGGGAGTCGAATCTTCTCCGGAATCGTTTGCTTTCATTTCTGAATCTGCACGAGCCCGCCGCGCGCCGTTTCCTTCTCTTCAcgtacaaccaaaacaaacaaaacaaacgcGCATCGCTCGGCTCCTTTCCTCGCGGGACTATtcgctgtttttgttttttgcgaaATAAAGGGCGTCCAGTGGAGAAGAGAGAATATAAAGATGAGTGTGGAGGCGTACGGGCCGAGCTCGCAGACGCTCACCTTCCTGGACACCGAGGAAGCGGAGCTGCTCGGGGCCGACACGCAGGGCTCCGAGTTCGAGTTTACCGATTTTACGCTGCCCAGCCAGACCCAGACGCAAGGCCAGACACAGAGTCAGCTCGACAACCAGGTGAACGGGCCTGATGGAGTTCTGCCCAATGGAGAAGATGCAGTGGGGAAAACCAGCCAACTTCTGGCCGAGCTGAACTTTGAGGAGGACGAGGAAGACACTTACTACACTAAAGACCTGCCGGTGCACGCCTGCAGCTACTGTGGAATCCATGATCCCGCATGTGTGGTTTACTGCAACACCAGCAAGAAGTGGTTTTGCAACGGCCGCGGCAACACCTCTGGCAGtcATATTGTGAACCACCTGGTGAGGGCCAAATGTAAGGAGGTGACGCTGCATAAGGACGGGCCGCTGGGAGAGACTGTTCTGGAGTGCTACAACTGTGGCTGCCGTAACGTCTTCCTGCTCGGCTTCATCCCTGCGAAAGCAGACTCTGTGGTGGTGCTTCTGTGCAGgcagCCGTGTGCCAGTCAGAGCAGTCTGAAGGACATTAACTGGGACAGCTCTCAATGGCAGCCCCTCATCCAGGACCGATGCTTTCTCTCCTGGCTGGTGAAGATCCCGTCTGAGCAGGAGCAGCTGAGGGCCCGGCAGATCACGGCGCAGCAGATTAACAAACTGGAGGAGCTCTGGAAGGAAAACCCAACAGCGACGCTGGAAGATCTGGAGAAGCCTGGAGTAGATGAGGAGCCGCAGCACGTTCTGCTACGATATGAAGACGCCTATCAGTACCAGAACATTTTTGGTCCACTGGTTAAACTAGAGGCCGACTATGACAAGAAGCTCAAAGAGTCCCAAACTCAAGACAATATAACAGTGAGGTGGGATTTGGGACTGAATAAAAAGCGGATAGCTTATTTCACTCTGCCCAAGACGGATTCAGGTGACATGCGGCTGATGCAAGGAGACGAGATCTGTCTGCGCTATAAAGGAGACATGGCTCCGCTCTGGAAAGGCATCGGACATGTCATCAAAGTCCCGGACAATTATGGAGATGAAATTGCCATCGAGCTGCGCAGCAGTGCTGGTGCACCTGTGGAGGTGCCACATAACTTCCAGGTGGACTTTGTGTGGAAGTCGACATCTTTTGATCGAATGCAGAGCGCCCTGAAGACGTTTGCTGTGGATGAGACCTCTGTGTCAGGCTACATCTACCACAAGCTGCTGGGTCACGAGGTGGAGGACGTGATCATCAAATGCCAGCTACCTAAACGCTTCACTGCGCAGGGCCTGCCAGACCTCAACCACTCGCAGGTTTATGCCGTGAAGACGGTACTCCAGCGGCCCCTCAGTCTGATCCAGGGGCCTCCAGGAACTGGAAAGACGGTCACTTCTGCCACCATCGTCTATCATCTAGCGAGACAGGGCAATGGTCCAGTGCTGGTTTGTGCGCCGAGTAACATCGCTGTGGACCAGCTAACAGAGAAGATCCATCAGACGGGACTGAAGGTGGTTCGTCTGTGTGCTAAGAGTCGTGAGGCCATCGATTCACCTGTGTCTTTCCTGGCTCTGCACAATCAGATCCGCAACATGGACAGCATGCCAGAGTTGCAGAAGCTTCAGCAGCTGAAGGATGAAACTGGCGAGCTTTCGTCCTCTGATGAGAAACGTTACCGTGCTCTCAAACGAACTGCAGAGAGAGAGCTGCTCATGaaTGCAGATGTGATCTGCTGCACATGTGTGGGTGCGGGTGACCCTCGTCTGGCTAAAATGCAGTTCCGCTCCATTCTCATCGATGAAAGCACACAGGCCACGGAGCCCGAGTGCATGGTGCCAGTGGTGCTCGGGGCTAAACAGCTGATTCTGGTCGGTGACCACTGTCAGCTGGGCCCTGTGGTCATGTGTAAGAAAGCAGCGAAAGCAGGCCTTTCTCAGTCTCTGTTCGAGAGGCTGGTGGTGCTGGGCATCAGACCCATCCGTCTGCAGGTGCAGTACCGCATGCACCCGGCGCTCAGTGCTTTCCCATCAAACATCTTCTATGAGGGATCTCTGCAGAACGGGGTCACTGCCGCTGATCGCCTTAAGAAAGGCTTTGACTTCCAGTGGCCCCAGCCTGATAAGCCCATGTTTTTCTACGTGACCCAGGGCCAGGAGGAGATCGCCAGCTCCGGCACCTCATATCTCAACAGGACTGAGGCTGCTAATGTGGAGAAGATCACCACTCGTCTGCTGAAGGCCGGAGCCAAACCTGACCAGATTGGCATCATCACGCCGTATGAGGGCCAGCGCTCTTACCTGGTGCAGTACATGCAGTTCAGCGGCTCATTGCACACCAAACTCTACCAGGAGGTGGAGATCGCCAGTGTGGATGCATTTCAAGGCAGAGAGAAGGACTTCATCATCCTGTCCTGTGTCAGAGCTAATGAACACCAGGGCATCGGCTTCCTGAACGACCCGCGCCGTCTCAATGTGGCACTCACCAGAGCCAGATATGGGGTGATCATTGTGGGCAACCCTAAAGCTCTGTCCAAACAGCCCCTGTGGAACCACCTGCTGAACTACTACAAGGAGCAGAAGGTGCTGGTGGAGGGTCCTCTCAACAACCTGAGGGAGAGTCTCATGCAGTTCAGCAAACCACGCAAACTGGTCAACACCATCAACCCTGGAGCCCGCTTCATGAGTACCGCCATGTATGATGCAAGGGAGGCCATGATTCCTGGATCTGTGTATGATCGCAGCAGCACTGGACGTCCATCTAATATGTACTTCCAGACTCATGATCAGGTGGGCATGATCGGGACGGGCCCAAATCCGATGGGCTCTTTGAACATCCCCATCCCATTCAATCTGGTCATGCCGCCGATGCCTCCGCCTGGGTATCTGGGACAGGTGAACGGACCTGCTGCAGGTCGTGGTGCTCCTAAAGGTAAGACCGGGGGTCGTGGAGGTCGACAGAGGAACCGTGGCACTGGGAATCATGGCAGCGGGCAGCCGAACATGCCCAACAGTCAGGCCAGCCAGGACCTGGTGTCTCAGCCCTTCTCTCAGGGTCCGCTGACCCAGGGCTATATCACCATGAGCCAGCCTTCACAGATGAGCCAGCCGGGCCTGTCCCAGCCGGAGCTCTCACagGACAGCTACCTGGGTGATGAGTTCAAGTCTCAGATGGATGTTGCGCTGTCCCAGGACTCCACCTACCAGGGCGAACGGGCATATCAACACGGAGGAGTGACTGGACTCTCACAGTACTAGAGTGTTGTTGGAACAGGAGCTAGGCCTGTGCTGAGCTTAGTTCATCAGCATTTTAAATATgggtaaatacaaaaaaagaacaaacatgGATGCCCGTTTACCACTGTTACAACTGAAGCACCATGGTGTGAGAGCAACAGGAGAGAATCAAACCAATCACAGGAGGGAGTAAAGCTGGACAGGACGAAAGAGAAAGGCGTGAGCGGCCGAAAAACATCCACCATTGGTGGAGGAGAGGGGGAGACGCAGTGTTCGGAGGAGACCAAACACGAGATCTTCCATCTGCAGCGGTGGAGGAGGAGGGCGGCTCCTGGAGCGCAGGTATGGGTCTGTCCCGTCCCGTCCCATCCCggcctcttctctctctctcgtcAGCCTCAGGCCTGCCCTGCCAACCGAGACGGAGCCAAGATGATGAAGTTCTCTTAAAACTACCTGCAAAAAAAAACACGCTTGCTCTGTCGTCTCCGCGAGCTGAGAGAGGGGGTGACGTATTTAAAGACACAAAGTAATTATAAACGCTTATCAAGCAGCTGATTTTTTGGGAAAATATAAGAGTCGCCCCTCAAAGTTGACATCCGACGTTCAGGTTCTGCCACCGAACATGAGAGAATGGACGAGAGCTTCGCCTTTCatttggatttttcttttttgcGTGCGCGCCGGGTCTCCTAGAAGGTGCTAGGACACTCTGAAGGACGATTCAACTTTGAGGACGTCGTAACGGAGAGCCACTTACGGCGGGTGACTCGCAAAAATAATGGGGGTAGTGAAATAAAAATGGCTTtctcttttcattttaaatgtttcgtCTCCGCAAGGGGGCCGACAAGATCTATCCTTTCCTCTTTTAAAATATGGTTTTtgttcaactagaataaaagcagtgaaCCGCTTGATTTAGACGTGGCTTTTAATATCTTGCTGCAAGCAGACGAtatgtaataataaatgaatcaatcaggGTGGAATCATCGTATGAGAAGGATGTGTCAATCACTGTAGGAAGCCCCGCCCACTGCTGTTTGCGTCCAATCAGGACGCAGTGGTGTTCTTTACATGGCAGAAAGCAGGAGATGGCCGCACCTATGCGAAGGACAGACAGGTGAGATTCTCGCTGTTTTTGCGTCTGACTGTAGGAGGCGCTGTTGCGTCTTTTTGCATCACGATGATGTCAGTGAGAGCGGCGTTTAATACGCCGaccagagctgtgtgtgtgtgagagtgtgtgtgtacgtTTGTGACTGCCCTccctcatcattattattattatttgtgttgtgGTAGttgtagttttctttttttcccctcgtTCTAGTTGCTCATTTGCATTTTTTCCTCCCTTAGTAGCTCATTTTTATTTGTACGATCTGACGTGAAGTTCTCGTAACCTCTCTCAGTGTGGAAATTGCTCTTCTTTGGTTTTGACGGACCCATTCGGAGTTTTATGGCAGCTTTTAACATCTGTTCCGACCGATGCCAGTCGCCTCAACTTTATACTTTTACTTTTGGAGTGTTTATACCTTGCTGTTACTCCATACGCGCAACACTTTTTGACTGTTTAATATTACTGAAGTACCACCGCTCGCATTTTATAGCATcgagcacaatttttttttggtttttcgTTCTCGACCCACAAGACAATCATGATCCGCTTCTCCACAGTTCCCGAGCATGTCAGTGTCTAATATTCTGACTTTTCACACTTTCCAATACTTGGGTTTCCATATTTCCCTCTTCAGATGTAAATATCAGACTTGATAACATCAGCCAAATTGTTGTCAATGACAATGCATTCACGATAAAGCCACGGCGATCCTCATTCTGGTTCTTCTTATGATCGAGTTTATGACTCCGAGATCACCCTTGTGTGAGTTTCTGCTGAGAAAGTTGCATCGGATTTGactgaaatgtacaataaatgaatGTAGTTTACCTTGCATTGAAGAGgaatgagggaaaaaaaagcaTCAGGATATGAAGTATAATTCAGGATTTTGCTTTGTGAAAAAGTTTTCACCCCCCACGGTATGTACTTCTTGTAacgttaaaaataaatgttgcttTCTTTCACCCAATGCAGGTCTGGTTGCTTCATTCGTCCTCTCTGTGATCTTTAAATGTTCTGgggtttttgtctgtttgtaaaTTCATTTTTAACGTGGTGTACATTTTGGTGTTAAAgtaatcttgttgtttttttttctccctaatctGGCTTCTGTGGTAACTGAAAATGAGAAATGCACAATGGGAATAATGTTTACTAACCTTAAAAGTGAGACGTTTATTTGTATTGATCAGAAATTTCATGCTATGTTATTTCTAATGGAAAAGATCTGATGTGGCATTTTCATTAATCAAAATCTCATGTGATCAGACTAATTGGATTTAATAACCTAATAAACTATACAGtcgaaagcagaagtttacatgcactgtataaaagtcacataaccatttaaaaacagtcagatgttaatgtgactaaactttttctcttttaggttaGTCAGGATGATCAAAttagtttctgttctgcttaatagcagaataatgagggatagtttgagaaattgttataaccttTCTGGAATGTCAAGTtgacatacaataagattattctgcctctgaaaaagctcagatgatagtgtcaaggttttggaagtttctgattggctaattgacaacatttgagttaactggaggcacaactgtagaatagtatttaaggaaatcctcaaacacacactgcttccttgtgtgacaacatgggaaaatcatcaagccagaatcaacaaaaaaagtcagattacaataagctaaatgacactgggaaaagactcatgtttggagacatgtcctgtgctctgatggagctaagactgaactgtttggccataatgaccagtgttacatttggaggacaaaggggaaagctgacaagcctagaacaccatcccaactgtgaagtatgggggcggcagcatcatgttgtggggctgtttggctgcaggagggactggtccacttcacagcatagatggcatcatgaagaaagaacattatggagaaatactgaagcaacatctcaagacatcagccaggaaattaaaacttgaccACAattgggtcttccaaacagaccatgaccctaagcacactgccaaattagttaacgtgctttaaggacaacagagtgaatgttttggagtggccatcacaaagccctgatctcaatcctatagaacattAGTGGGCAGAGTTGAAATAGCTTGAGCGAGCAAGACCGCCTACAAATTTGACTCCGTTACaccaatatatatgtgtgtgtgtgtatatatgtgtgtgtgtgtgtgtgtatatatttatatatatatatatatatatatatatatatatatatatagagagagagagagagagagagagagagagatggtctggttcttgaatctgattggctgatagctgtgcaatatcagcactcttacatcctcttcacccttgtgttttactccgcccacatagagtgacagcagatcaataaactcactacagtttgacaaatattgcagctgatggacaacataatgtaccttTGGATTGTTTTAGGTGAGATGATAGTTGTTTAGActgtaactatgcagtttatttattaggATAGGGCCTATTTTAAATACCTAACTTTGGAGATCGGAGCCTTttatactgagcagagcaaagacggttgcaccacaagatggcgacagagtctgcataataagcccttatagGAGGGAAAACAGCGTCTTTTcatatttcaaactacagctgatcaaatcatcacagaacaggtaaatgactttctaagtcgatctctctctctttagtatgttgtagtgctgtatttataccacagtctGGTAGTGTTTCTGAtcgtgtttgctttgctttggctttttaagggttaattattgtgatctcccgattgcaacagagaaatactgagaaatctctgtagactgatggcatttcatgctgttcagcattataatcttaaaatgtcagcaaaatcagctgttttgtagTCACTTTAGAAATTACGCTATAGAGGATCGTTCACTATAGCTCTAAAGTGaagttggtgaattagtaacggtttctgctgttctgacatcagctgc

Function

GO:

id name namespace
GO:0043009 chordate embryonic development biological_process
GO:0000956 nuclear-transcribed mRNA catabolic process biological_process
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay biological_process
GO:0005737 cytoplasm cellular_component
GO:0005524 ATP binding molecular_function
GO:0016787 hydrolase activity molecular_function
GO:0003677 DNA binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0003724 RNA helicase activity molecular_function
GO:0008270 zinc ion binding molecular_function
GO:0004386 helicase activity molecular_function

KEGG:

id description
ko03013 Nucleocytoplasmic transport
ko03015 mRNA surveillance pathway
ko03019 Messenger RNA biogenesis

ZFIN:

id description
ZDB-GENE-040426-2836 Predicted to enable RNA binding activity and RNA helicase activity. Involved in nuclear-transcribed mRNA catabolic process. Acts upstream of or within chordate embryonic development and nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Predicted to be active in cytoplasm. Orthologous to human UPF1 (UPF1 RNA helicase and ATPase).

Ensembl:

ensembl_id ENSDART00000021011

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00033723 lncRNA upstream 38176 56125003 ~ 56130443 (+) False XLOC_015978
TCONS_00033724 lncRNA upstream 38176 56125168 ~ 56130443 (+) False XLOC_015978
TCONS_00033725 lncRNA upstream 41793 56125171 ~ 56126826 (+) True XLOC_015978
TCONS_00033722 lncRNA upstream 178290 55982949 ~ 55990329 (+) False XLOC_015976
TCONS_00033327 lncRNA downstream 87201 56324334 ~ 56335388 (+) True XLOC_015983
TCONS_00033328 lncRNA downstream 92408 56329541 ~ 56331424 (+) True XLOC_015984
TCONS_00033726 lncRNA downstream 260001 56497134 ~ 56507389 (+) False XLOC_015987
TCONS_00033329 lncRNA downstream 345829 56582962 ~ 56583372 (+) True XLOC_015988
TCONS_00033330 lncRNA downstream 445958 56683091 ~ 56684937 (+) True XLOC_015990
TCONS_00031661 mRNA upstream 6012 56139941 ~ 56162607 (+) False XLOC_015979
TCONS_00031659 mRNA upstream 126729 56012016 ~ 56041890 (+) False XLOC_015977
TCONS_00031660 mRNA upstream 128528 56012070 ~ 56040091 (+) True XLOC_015977
TCONS_00031652 mRNA upstream 178335 55982940 ~ 55990284 (+) False XLOC_015976
TCONS_00031666 mRNA downstream 28658 56265791 ~ 56283159 (+) True XLOC_015982
TCONS_00031667 mRNA downstream 226034 56463167 ~ 56476990 (+) False XLOC_015985
TCONS_00031671 mRNA downstream 420671 56657804 ~ 56671326 (+) True XLOC_015989
TCONS_00031674 mRNA downstream 654725 56891858 ~ 56911005 (+) True XLOC_015993
TCONS_00031675 mRNA downstream 700415 56937548 ~ 56976287 (+) False XLOC_015994
TCONS_00031662 other upstream 6015 56139972 ~ 56162604 (+) True XLOC_015979
TCONS_00031635 other upstream 1381879 54755172 ~ 54786740 (+) False XLOC_015963
TCONS_00031622 other upstream 2482431 53686071 ~ 53686188 (+) True XLOC_015951
TCONS_00031613 other upstream 4028923 52122720 ~ 52139696 (+) True XLOC_015939
TCONS_00031589 other upstream 5276675 50862527 ~ 50891944 (+) False XLOC_015923
TCONS_00031668 other downstream 226078 56463211 ~ 56476884 (+) True XLOC_015985
TCONS_00031669 other downstream 250535 56487668 ~ 56493661 (+) True XLOC_015986
TCONS_00031670 other downstream 260761 56497894 ~ 56507389 (+) True XLOC_015987
TCONS_00031672 other downstream 601548 56838681 ~ 56838799 (+) True XLOC_015991
TCONS_00031673 other downstream 610610 56847743 ~ 56847859 (+) True XLOC_015992

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) AMCG00006067 True 7190 mRNA 0.48 24 CM030142.1 15544838 ~ 15559349 (-)