RNA id: TCONS_00020017


Basic Information

Item Value
RNA id TCONS_00020017
length 1776
RNA type mRNA
GC content 0.47
exon number 4
gene id XLOC_010072
representative False

Chromosome Information

Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 33930864 ~ 33937924 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTGTTTTCGTGCTCTCTTTTGGTATGAACGACTCTTACTATTTACGGAGCTAATAGACGAATTTATTTCACGATGGACAACAGGAGACGACACAGAGACTCTCCTGTCCGGGATGTAAAGACGAAAATTAAGCAAGAAAGACTGAGCCCCGCGCGGCCTCCGCGAGCGCGCAGACACAGTTCAGGATCCAGCCGAGACAGCAGCAGCCCTGCACAGCGCCGACGAGACAGCAGATCACCGGTGAGGAGAAAGGACAGATCACCGGCGAGAAGAGACCGTTCGTCGGGGAGACAGCAGGAGAGGTCGCCTCGGCCCCGGAGGAGCAGAAGCCCGCACCGCAACACTGAGGCGAGGATAAAACGGGAACAAGATGATCCCAGAGGATCTGAAAGTCATCGGCATCGCGAGAGAAGGGACGATTCAAACGACCGCAGGCTGAAGAGGGAGGCTGAGCGACCACGGCAAAGAGATCGAGGCCGAGAACAAGACCGACAACGTGGAAGAATACGAGATGCCCATATTCAAGAGCAACAGCAGGCTGAGAGGGAACGACACAATGAGCGGCGGAGAGAGAATCGCCTCAGACAGGAAGCTCAGAGCGGCGGCGCTGAGGAAATGCTCGAGTTTGGCGGTGAAAACAATGACGAATCGGCCCCTGCAGCCGAGAAGGAAAAGCCCAATTTTGAACTGTCTGGCGCTTTGGTGGAAGATACCAATACATTCAGGGGGGAGGTGATCAAGTACAATGAGCCTCCCGAAGCGCGGATCCCTAAAAGAAGATGGCGTTTGTATCCCTTTAAGAATGACGAACCGCTCCCGGTCATGTACATCCACAGGCAGAGTGCGTATCTACTTGGAAGACTGAGGAAGATTGCAGACATTCCTATCGACCACCCGTCTTGTTCCAAACAACATGCTGTTTTTCAATACAGGTTAGTGGAGTTCACACGGGTGGATGGCACTGCAGGCAGGAGAGTGAAGCCGTACATCATCGATCTGGGTTCTGGTAACGGCACCTACCTGAACAATCAGCGCATCGAACCTCAGCGTTACTACGAGCTCAAAGAGAAGGACGTGCTGAAGTTCGGCTTCAGCAGCAGAGAGTATGTGCTCCTTCACGAGTTCTCTGACACAACCGAGGTCGATGCGAAGAagaaggaggaagaagaagaggaggatgaagggCTGGATGAGTAGCTCTCTCCTCAAAGTTTACCAAAGTAACCTGTTTGTGCTGGactgaaagttttttttcaaaCAGGACGAGCATGAACTGctcatttattcataatttccTTCTGAACAATGAAACGATGATGCTTCAGCCTGCCCAAGTTGTCTGTATGACTTATTCTCAGGTGGATAGCTTTTGTATCCCGTCAAACTGTGTACATTGTTGTCCCTAAAAGCAAGTGCTCAAAGCCAGAACTAATGAATCTgtctttaaaaacatatattttggaTACGCTTGAAAAAGAGTGAATATAATGTTCGTTTTGGTTACTGTAAATATACTGGATTTATCTGAAGTGACTGCTCgtttaatgtgttttagtttgtaGTATTTGTGATTTAGATGCCTACTATGTTCTGGTCAGTTGAACCAGTCTCCTAGCGCCAGCATCTTCACGATCATTCAGAAAATACTGAGAATAATTTGAATAGTGCTACAGAAAAGATGCCATCTTTCTTTACATATTTTCTATTCTCTCACAGTGCATTCATATTTGATGATTAGatgttttgtattgtaaaataaagatggataataatgaa

Function

GO:

id name namespace
GO:0035196 production of miRNAs involved in gene silencing by miRNA biological_process
GO:0005634 nucleus cellular_component
GO:0003729 mRNA binding molecular_function

KEGG:

id description
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-041026-3 Predicted to enable mRNA binding activity. Acts upstream of or within mRNA splicing, via spliceosome. Predicted to be active in nucleus. Is expressed in several structures, including blastodisc; fourth ventricle; notochord; otic vesicle; and pectoral fin bud. Orthologous to human SNIP1 (Smad nuclear interacting protein 1).

Ensembl:

ensembl_id ENSDART00000125945

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00021975 lncRNA upstream 174485 33752361 ~ 33756379 (+) True XLOC_010070
TCONS_00020008 lncRNA upstream 637084 33254300 ~ 33293780 (+) False XLOC_010066
TCONS_00021728 lncRNA upstream 637084 33291419 ~ 33293780 (+) True XLOC_010066
TCONS_00020009 lncRNA upstream 642656 33255079 ~ 33288208 (+) False XLOC_010066
TCONS_00021727 lncRNA upstream 675611 33250490 ~ 33255253 (+) False XLOC_010066
TCONS_00020020 lncRNA downstream 2066 33939990 ~ 33943728 (+) True XLOC_010073
TCONS_00020024 lncRNA downstream 54395 33992319 ~ 33993459 (+) False XLOC_010076
TCONS_00021976 lncRNA downstream 377838 34315762 ~ 34321379 (+) True XLOC_010080
TCONS_00021977 lncRNA downstream 381965 34319889 ~ 34323007 (+) True XLOC_010081
TCONS_00020032 lncRNA downstream 541073 34478997 ~ 34502203 (+) False XLOC_010082
TCONS_00020015 mRNA upstream 4987 33902006 ~ 33925877 (+) False XLOC_010071
TCONS_00020016 mRNA upstream 11074 33902062 ~ 33919790 (+) True XLOC_010071
TCONS_00020012 mRNA upstream 194033 33655890 ~ 33736831 (+) False XLOC_010069
TCONS_00020011 mRNA upstream 334879 33593116 ~ 33595985 (+) True XLOC_010068
TCONS_00020007 mRNA upstream 751745 33163858 ~ 33179119 (+) True XLOC_010064
TCONS_00020019 mRNA downstream 303 33938227 ~ 33943728 (+) False XLOC_010073
TCONS_00020021 mRNA downstream 15720 33953644 ~ 33985497 (+) False XLOC_010074
TCONS_00020022 mRNA downstream 15720 33953644 ~ 33986796 (+) True XLOC_010074
TCONS_00020023 mRNA downstream 49968 33987892 ~ 33990724 (+) True XLOC_010075
TCONS_00020025 mRNA downstream 54494 33992418 ~ 34006335 (+) False XLOC_010076
TCONS_00020014 other upstream 174485 33752102 ~ 33756379 (+) False XLOC_010070
TCONS_00020013 other upstream 197486 33719969 ~ 33733378 (+) True XLOC_010069
TCONS_00020010 other upstream 587599 33343151 ~ 33343265 (+) True XLOC_010067
TCONS_00019992 other upstream 1257928 32672820 ~ 32672936 (+) True XLOC_010055
TCONS_00019985 other upstream 1734097 32192197 ~ 32196767 (+) True XLOC_010050
TCONS_00020038 other downstream 786644 34724568 ~ 34724682 (+) True XLOC_010085
TCONS_00020039 other downstream 1268931 35206855 ~ 35280788 (+) True XLOC_010087
TCONS_00020045 other downstream 1464137 35402061 ~ 35405887 (+) True XLOC_010091
TCONS_00020056 other downstream 1788094 35726018 ~ 35726132 (+) True XLOC_010096
TCONS_00020068 other downstream 2644562 36582486 ~ 36584785 (+) False XLOC_010109

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000027_10545286_10547348.mRNA True 1155 mRNA 0.43 3 CI01000027 10545286 ~ 10547894 (+)