RNA id: TCONS_00028095


Basic Information

Item Value
RNA id TCONS_00028095
length 413
lncRNA type retained_intron
GC content 0.40
exon number 2
gene id XLOC_014098
representative True

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 27339848 ~ 27358545 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TTGCCTTTAACTACGACATGCCTGAAGACTCTGACACGTACCTGCACAGGGTTGCACGGGCTGGCAGATTCGGAACAAAAGGTCTGGCCATCACCTTTGTGTCCGATGAAAATGATGCCCGCACTTTGAATGACGTTCAGGACAGGTTTGAGGTGAACATCAGTGAACTTCCAGAGGAGATTGACATCTCATCATACAGTGAGTGTTAACATTCAAACTTTAAAATGTACAGAACAAGATGAGAACATTTCTATATAGGAAATCAAATCGATAAATAATTCAGTTCTCCACATACGAACTACATAACAATGGACTAAAAACGAAAGCATTTCATTTGATTTTTGAAAAGTGTTTGGGTTACAGATGATCTGTATTATTGAGGTCTGCAGTACTTGGTCAGTATCTTGactagt

Function

GO:

id name namespace
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0006406 mRNA export from nucleus biological_process
GO:0005524 ATP binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0003724 RNA helicase activity molecular_function

KEGG:

id description
ko03040 Spliceosome
ko03013 Nucleocytoplasmic transport
ko03015 mRNA surveillance pathway
ko03019 Messenger RNA biogenesis
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-040426-1259 Predicted to enable RNA binding activity and RNA helicase activity. Predicted to be involved in mRNA export from nucleus and mRNA splicing, via spliceosome. Human ortholog(s) of this gene implicated in type 1 diabetes mellitus. Orthologous to human DDX39B (DExD-box helicase 39B).

Ensembl:

ensembl_id ENSDART00000149515

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00029916 lncRNA upstream 312817 27033873 ~ 27041528 (+) True XLOC_014097
TCONS_00028060 lncRNA upstream 2201768 25151416 ~ 25152577 (+) True XLOC_014079
TCONS_00029915 lncRNA upstream 2293378 25003517 ~ 25060967 (+) True XLOC_014078
TCONS_00029914 lncRNA upstream 2370837 24959229 ~ 24983508 (+) True XLOC_014077
TCONS_00028059 lncRNA upstream 2419050 24922531 ~ 24935295 (+) True XLOC_014076
TCONS_00028103 lncRNA downstream 532452 27887318 ~ 27892055 (+) True XLOC_014102
TCONS_00029917 lncRNA downstream 619799 27974665 ~ 27976483 (+) True XLOC_014104
TCONS_00029918 lncRNA downstream 759648 28114514 ~ 28187683 (+) False XLOC_014105
TCONS_00029919 lncRNA downstream 760939 28115805 ~ 28195442 (+) False XLOC_014105
TCONS_00029920 lncRNA downstream 761035 28115901 ~ 28187683 (+) False XLOC_014105
TCONS_00028092 mRNA upstream 330326 27019432 ~ 27024019 (+) True XLOC_014096
TCONS_00028086 mRNA upstream 421516 26922780 ~ 26932829 (+) False XLOC_014095
TCONS_00028096 mRNA downstream 93759 27448625 ~ 27453644 (+) True XLOC_014099
TCONS_00028097 mRNA downstream 124697 27479563 ~ 27506368 (+) False XLOC_014100
TCONS_00028098 mRNA downstream 124724 27479590 ~ 27515651 (+) False XLOC_014100
TCONS_00028099 mRNA downstream 124972 27479838 ~ 27506368 (+) True XLOC_014100
TCONS_00028100 mRNA downstream 234335 27589201 ~ 27608549 (+) True XLOC_014101
TCONS_00028091 other upstream 422912 26928624 ~ 26931433 (+) True XLOC_014095
TCONS_00028082 other upstream 548463 26805766 ~ 26805882 (+) True XLOC_014093
TCONS_00028077 other upstream 777637 26576594 ~ 26576708 (+) True XLOC_014090
TCONS_00028073 other upstream 1161409 26192822 ~ 26192936 (+) True XLOC_014087
TCONS_00028068 other upstream 1842783 25508793 ~ 25511562 (+) True XLOC_014083
TCONS_00028109 other downstream 788269 28143135 ~ 28143254 (+) True XLOC_014106
TCONS_00028114 other downstream 936510 28291376 ~ 28315953 (+) False XLOC_014108
TCONS_00028117 other downstream 966813 28321679 ~ 28331097 (+) False XLOC_014108
TCONS_00028118 other downstream 976361 28331227 ~ 28334164 (+) True XLOC_014108
TCONS_00028122 other downstream 1848276 29203142 ~ 29203257 (+) True XLOC_014111

Expression Profile

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