RNA id: TCONS_00059913


Basic Information

Item Value
RNA id TCONS_00059913
length 3030
RNA type mRNA
GC content 0.52
exon number 20
gene id XLOC_030778
representative True

Chromosome Information

Item Value
chromosome id NC_007116.7
NCBI id CM002889.2
chromosome length 72500376
location 4253929 ~ 4297459 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTGCCGCTCCGTGTGGACAGTCGTGCGCTGGCGGGAGTTTGCCGGATTAAAGCCGTTTAAAACGAAGAAATCGCAAAGCTTTCCTGAAACTCGGCCTTCACTGAAACACAATGGGCGACAGTGATGACGAGTACGACCGCAGACGCAGAGACAAGTTCCGCCGGGAGAGGAGCGACTATGACCGGTCCAGGGAGAGAGAGGACCGCCGTAGGGATGACTGGAATGACCGGCGGCCCTCGGCTCGGGAATGGGACCGGGGCCGAGAGCGTCGCAGCAGAGGGGAGTACCGGGACTACGACAGGGGCCGACGAGAGAGATTCTCCCCTCCACGACATGACATGAGCCCCCAACAGAAGCGCATGAGGAGAGACTGGGATGACCATGGAGGTGATCCGTACCATGGTGGCTATGATCTGGGTTATGGTGGCGGTGGAGGACCCAGCTACGCCCCTCCTCAGCCGTGGGGTCACCCTGACATGCACCTGATGCAGCCCCATCATGGAATCCCCATCCAGGCCAGgctgggaaacatccacgatATGGATCTTGGTCCTCCTCCTCCTGTGATGAAGACCTTTAAGGAGTTTCTGATTTCTCTGGATGACTCTGTGGACGAGACGGAGTCGGTCAAACGCTACAATGAGTACAAGATTGATTTTAGGCGTCAGCAGATGCAGGACTTCTTCCTGGCCCATAAAGATGAAGAGTGGTTTCGCTCAAAGTACCACCCGGATGAGGCTGGGAGGCGTAAAGCTGAAGCCCACAGTGCTCTGCAGAACCGGCTGGGCGTCTACATGTACCTGATGGACAACAACTGGTTTGAGTCGGTCTCTTTGGATATTGAGCGTGCTCCGCAAATCACCAAGATTTTAGATGCAGCCGTGATAAAGATGGAGGGAGGAGCAGAAAATGACCTGCGCATCCTGGAGCAGCCCAGCGAGGAAGAAGAGGAGCGTGAGAGACTGTCATCTGGTGGAACTCCCTCTGAACCCTCTAAACGGGACGAACCCAAGCCTGCAGATACTGAGAACAAACCCTCAGAGGAAAAAGACAAGATGGAAGAGGGTGAGGAGAGCGCTGAGAAAGACGGAGAAAAGGCTTCTGCAGGAGGAAGTGAAGGAGAGGAGAAAACTGAGAAGGAAGCACCTGCTGAACCAATCCCTGAACCCAAGAAGctgagtaagaagaggaagaggaagcaCAGTGGAGACAGCGAGGATGAAGCCAGTGCATCTGAGAGCGAATCTGATTCTGACTCCGACTCAAACTCTCACTGCTCTGAGAAACCctcggagagagagagagaaccagAAGAAGTGGAGGAAaaggaagaagaggaagaagaggagggtGAAGCGGCTGATGGAAAGGAGCAGACGGATGAGCAGACGGAAAGAGAGAAGGAAAAAGAGAAGAAAGTAAAGGATGATCAGCCTCCACGTCCTCGACCTCTTCACAGGACGTGTTCTCTGTTCATGAGGAGTATCGCTCCAACAATATCTAAAGCAGAGATCGTGGCTCTGTGTCGACGTTATCCAGGATTTATGCGCGTTTGTTTGTCGGAACCACAGCCAGAGCGCAGGTTTTTCCGCCGTTGTTGGGTGACCTTTGACAGAGGAGTGAACATCAAAGAGATCTGCTGGAACCTGCAGAACATCCGGCTGCGGGACTGTGAATTGGCTCCTGGAGTTAATCGTGATTTGGCGCGTCGGGTGCGAAACGTCAACGGAATCACTCAGCATAAGCAGGTTCTGCGTAACGACATCAAGCTAGCGGCTAAACTGATTCACGCACTGGATGACAGGGAGAAACTCTGGAGCCAGAAACCCAGAGAAGAGACGCCCACTCTAGAGCTTCCTGCTCAAAACCCCATTCTGAAGAACATCACTGATTACCTGATAGAGGAAGTGAGTGCGGAAGAGGAAGAGCTTCTGGGAAGTGCCGGAGGAGGCGACTCTGAAGATGGATCCAAAGAGGGAAACCCCACTGAGATTACTGTGGAGAGAGATGAGAAACTCGTCAAGGTGTTGGACCGTCTCCTCTTTTATCTGCGTATTGTACACTCTATTGACTATTACAACACCTGCGAGTACCCGAGTGAGGACGAGATGCCGAACCGCTGCGGGATCATCCATGTGCGAGGGCCCATTCCCCCAAACCGCATTACTCTCAGAGAGGTGAGTGACTGGCAGAAGACTTTTGAAGAGAAAATGGGACCCTTGTTCAGTGTGAAAGAAAACCTGTCTGAGGACGAAGCGGCGAAAATGGGCCGCAAAGACCCAGAACAGGAAGTGGAAAAGTTTGTGGTGGCCAACACACAGGAACTGGGCAAAGACAAGTGGCTCTGCCCTCTAAGTGGCAAAAAGTTTAAGgGCCCAGAGTTTGTGAGGAAGCACATCCTGAACAAACACGGGGACAAGATTGAGGAAGTAAAGAAAGAGGTGGTGTTTTTCAACAACTTCCTAATGGATGCTAAAAGACCATGCATCCCGGAGATGAAACCCCCACCCCATCCAGGCCCAGGACAGGGAGTGCTGTCACCCGGTGGTCTTCCCTTCCCACCGCAGGGTCCTCAAGGTCTCATGGGTTTTGGTCAGCCCAGACCTCCACTTATGGGTTATGGAGGTGGTCCTCCGTATCCCCCTAACCAGTATGGTGGAGGCAGAGGCAACTATGATAACTTCCGTGGACAGGGCGGATATCCTGGAAAACCCAGAAACAGCCGAGTGATGCGTGGAGATCCTCGCAATATCATCGAGTATCGTGATTTAGACGCACCTGATGATGTGGATTTCTTTTAGAGCTCCAGTTTTAGTCTCTACAttttaacctgttttttttttacggttGTCACAGCATTTTCTCGTTTTTTGCATTCATTCCAGAAGCTGCCCGCCGCCGTCTCCTTTCACATGTATTACAGTAGCAAAGCTTCACTTTGTGTTCAATGTCATTATGTACTTCATGTCATAATGTGAGCGTGTGCTTTATGGCCTTTTTTTCCTCCAATAAAACTTTAATTTGGATGCA

Function

GO:

id name namespace
GO:0006397 mRNA processing biological_process
GO:0031047 gene silencing by RNA biological_process
GO:0031053 primary miRNA processing biological_process
GO:0005634 nucleus cellular_component
GO:0005654 nucleoplasm cellular_component
GO:0016604 nuclear body cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005737 cytoplasm cellular_component

KEGG: NA

ZFIN:

id description
ZDB-GENE-020419-13 Predicted to be involved in primary miRNA processing. Predicted to act upstream of or within gene silencing by RNA and mRNA processing. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be active in nuclear body. Orthologous to human SRRT (serrate, RNA effector molecule).

Ensembl:

ensembl_id ENSDART00000018895

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00059902 lncRNA downstream 317333 3935917 ~ 3936596 (-) True XLOC_030772
TCONS_00059901 lncRNA downstream 326234 3922885 ~ 3927695 (-) True XLOC_030771
TCONS_00059894 lncRNA downstream 583691 3660658 ~ 3670238 (-) True XLOC_030767
TCONS_00059891 lncRNA downstream 684491 3568199 ~ 3569438 (-) False XLOC_030765
TCONS_00061920 lncRNA downstream 699120 3553600 ~ 3554809 (-) True XLOC_030764
TCONS_00061921 lncRNA upstream 323971 4621430 ~ 4622003 (-) False XLOC_030782
TCONS_00061922 lncRNA upstream 323971 4621430 ~ 4622063 (-) True XLOC_030782
TCONS_00059918 lncRNA upstream 343000 4640459 ~ 4643289 (-) False XLOC_030783
TCONS_00059917 lncRNA upstream 343000 4640459 ~ 4643289 (-) True XLOC_030783
TCONS_00061923 lncRNA upstream 372812 4670271 ~ 4673865 (-) True XLOC_030784
TCONS_00059912 mRNA downstream 8743 4235513 ~ 4245186 (-) True XLOC_030777
TCONS_00059911 mRNA downstream 14164 4232196 ~ 4239765 (-) False XLOC_030777
TCONS_00059910 mRNA downstream 23559 4223515 ~ 4230370 (-) True XLOC_030776
TCONS_00059908 mRNA downstream 34188 4209578 ~ 4219741 (-) True XLOC_030775
TCONS_00059907 mRNA downstream 37605 4209163 ~ 4216324 (-) False XLOC_030775
TCONS_00059914 mRNA upstream 84919 4382378 ~ 4418555 (-) True XLOC_030779
TCONS_00059915 mRNA upstream 184978 4482437 ~ 4493502 (-) True XLOC_030780
TCONS_00059916 mRNA upstream 226174 4523633 ~ 4532516 (-) True XLOC_030781
TCONS_00059922 mRNA upstream 623633 4921092 ~ 4931266 (-) False XLOC_030788
TCONS_00059923 mRNA upstream 623934 4921393 ~ 4923473 (-) True XLOC_030788
TCONS_00059909 other downstream 27309 4223515 ~ 4226620 (-) False XLOC_030776
TCONS_00059873 other downstream 2041141 2212672 ~ 2212788 (-) True XLOC_030748
TCONS_00059869 other downstream 2291520 1962282 ~ 1962409 (-) True XLOC_030744
TCONS_00059868 other downstream 2293729 1960073 ~ 1960200 (-) True XLOC_030743
TCONS_00059866 other downstream 2301151 1952652 ~ 1952778 (-) True XLOC_030742
TCONS_00059924 other upstream 645139 4942598 ~ 4942712 (-) True XLOC_030789
TCONS_00059943 other upstream 2233608 6531067 ~ 6531182 (-) True XLOC_030808
TCONS_00059948 other upstream 2631575 6929034 ~ 6929148 (-) True XLOC_030810
TCONS_00059949 other upstream 2850832 7148291 ~ 7148407 (-) True XLOC_030811
TCONS_00059951 other upstream 3133966 7431425 ~ 7431523 (-) True XLOC_030814

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000171_00788022_00797188.mRNA True 2700 mRNA 0.49 16 CI01000171 787746 ~ 797188 (-)
bowfin (Amia calva) AMCG00011581 True 2819 mRNA 0.67 21 CM030138.1 222586 ~ 232573 (+)