RNA id: TCONS_00001440


Basic Information

Item Value
RNA id TCONS_00001440
length 1644
RNA type mRNA
GC content 0.48
exon number 15
gene id XLOC_000909
representative False

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 152007 ~ 157563 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCTGCGTGCGCTCAGATGTAAACAGGAAGTGACGTCGGTGGCGTTTGGAGGAAAGAAGCACGCGCGCGAAGTGATGTGAATTAATGTTGGTAGGCATTTCTCAGTGCTATAGACCCTCACTTCAGAGATCAGGAAATGGCTCATATCACTCTGAACCAGTACCTGCAGCAGGTTCTGGAGGCCATAGACAGCAGAGACGGCTCCTTCTGCGCAGAGATGCTGTCCTTCAAGCATCCACACGTGGCCAACCCTCGCCTGCAGttgTCCAGTCCAGAGGAGAAGTGTCAGCAGCTGCTGGAGCCGCCGTATGATGAGATGGTGGCCGCTCATCTCAGATGTACGTTCGCGGTGTCCAACCATGACTTTGTGGAGGCCTACAAATGCCAGACGGTGGTAGTTCAATCATTTCTGAAGGCGTTTCAGGCTCATAAAGAGGAGAACTGGGCACTGCCCATCATGTTCGCCGTGACCCTTGACCTCAGGATATTCGCCAATAATgcGGAGCAGCAGCTGCAGCAGAAGGGCAAAGGGAAGGTTGGAGATATGCTGGAGAAAGCGGCGGAGCAGCTAATGAGCTGCTTCAGAGTGTGTGCCAGCGACAAtcgcGCTGGGATTGACGACTCGAAGAAATGGGGAATGTTGTTCCTCATCAATCAGCTCTTCAAGATCTATTTCAAAatcaaTAAGCTGCACCTGTGTAAGCCGCTCATCCGCGCCATCGACAGCTCCAACCTGAAGGACGAGTACACCATGGCTCAGCGCGTCACCTACAAATACTACGTGGGCAGGAAGGCCATGTTCGACAGCGACTTCAAACCAGctgagGAGTGTCTGTCGTTCTCCTTTACCCACTGCCATCGCTCCTGCCAGAGGAACAAGCGGCTGATCCTCATCTACCTGCTGCCCGTTAAGATGCTGCTGGGTCACATGCCCACACACCAGCTACTGAAGAAATATGACCTCATGCAGTTTGCTGATGTCACTAAAGCTGtcagtgagggGAATCTGCTGCTGCTGAACGCCGCTCTGGTCAAACACGAGACGTTCTTCATCCGCTGCGGGATCTTCCTCATCCTGGAGAAGCTGAAGATCATCACCTACAGAAACCTCTTCAAGAAAGTGTATCATCTCCTGAGGACTCATCAGCTTCCTCTGGCTGCATTTCTGGTGTCGCTGCAGATGATGAAGGTGGAGGACGTGGACATCGACGAGGTGCAGTGCATTCTGGCCAACCTCATCTACatgGGTCACATTAAGGGCTATATTTCCCATCAGCACCAGAAGCTGGTGGTCAGCAAGCAGAATCCCTTCCCTCCGCTGTCCAGCATCTCCTGAACTCCATCTCCCAGAATGCACCATCACAGACACACTGATCCTCAGAGCTTCGGTCTTATATTCTTCTGAATATTGTTAGATAAACATCACACTGttttgtacattttctttttttaattactgaTCAATCATTTATAAATTCAGCCTAAAATCATTAGAATggcaatattttaattatattgcattaaacaatatattattttatacatgaCTCACATTTAATCCAGATTTGTACACATTACGGATGTTGAATCTTACAGGAATAACATGTTTAATGAACATTATGtcacataaaaaagaaagaaagta

Function

GO:

id name namespace
GO:0071033 nuclear retention of pre-mRNA at the site of transcription biological_process
GO:0006368 transcription elongation from RNA polymerase II promoter biological_process
GO:0000973 posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery biological_process
GO:0016973 poly(A)+ mRNA export from nucleus biological_process
GO:0070390 transcription export complex 2 cellular_component
GO:0003690 double-stranded DNA binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko03019 Messenger RNA biogenesis

ZFIN:

id description
ZDB-GENE-041114-79 Predicted to enable RNA binding activity and double-stranded DNA binding activity. Predicted to be involved in RNA metabolic process; poly(A)+ mRNA export from nucleus; and posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery. Predicted to be part of transcription export complex 2. Orthologous to human PCID2 (PCI domain containing 2).

Ensembl:

ensembl_id ENSDART00000018741

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00003285 lncRNA downstream 4161 108285 ~ 147846 (-) True XLOC_000907
TCONS_00003286 lncRNA downstream 9888 141289 ~ 142119 (-) True XLOC_000908
TCONS_00001439 lncRNA downstream 41203 108285 ~ 110804 (-) False XLOC_000907
TCONS_00001433 lncRNA downstream 80513 65705 ~ 71494 (-) False XLOC_000906
TCONS_00001438 lncRNA downstream 80535 67890 ~ 71472 (-) True XLOC_000906
TCONS_00002894 lncRNA upstream 32171 189734 ~ 191985 (-) True XLOC_000911
TCONS_00002895 lncRNA upstream 41963 199526 ~ 201194 (-) False XLOC_000910
TCONS_00002896 lncRNA upstream 51566 209129 ~ 210813 (-) True XLOC_000912
TCONS_00001454 lncRNA upstream 186054 343617 ~ 345895 (-) False XLOC_000914
TCONS_00001463 lncRNA upstream 322244 479807 ~ 484588 (-) False XLOC_000918
TCONS_00001435 mRNA downstream 80484 65705 ~ 71523 (-) False XLOC_000906
TCONS_00001434 mRNA downstream 80484 65705 ~ 71523 (-) False XLOC_000906
TCONS_00001437 mRNA downstream 80537 67887 ~ 71470 (-) False XLOC_000906
TCONS_00001436 mRNA downstream 82563 66283 ~ 69444 (-) False XLOC_000906
TCONS_00001432 mRNA downstream 86990 60987 ~ 65017 (-) True XLOC_000905
TCONS_00001447 mRNA upstream 2739 160302 ~ 201004 (-) False XLOC_000910
TCONS_00001448 mRNA upstream 27352 184915 ~ 191971 (-) False XLOC_000911
TCONS_00001449 mRNA upstream 27353 184916 ~ 192033 (-) False XLOC_000911
TCONS_00001450 mRNA upstream 42731 200294 ~ 206208 (-) True XLOC_000910
TCONS_00001451 mRNA upstream 50618 208181 ~ 214911 (-) False XLOC_000912
TCONS_00001429 other downstream 102172 47954 ~ 49835 (-) False XLOC_000904
TCONS_00001421 other downstream 107461 42204 ~ 44546 (-) False XLOC_000903
TCONS_00001460 other upstream 310180 467743 ~ 471925 (-) True XLOC_000917
TCONS_00001476 other upstream 463462 621025 ~ 625080 (-) False XLOC_000923
TCONS_00001485 other upstream 893378 1050941 ~ 1051057 (-) True XLOC_000930
TCONS_00001486 other upstream 1156042 1313605 ~ 1315753 (-) True XLOC_000932
TCONS_00001492 other upstream 1713298 1870861 ~ 1875118 (-) False XLOC_000939

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000299_06269853_06274289.mRNA True 1273 mRNA 0.48 11 CI01000299 6269602 ~ 6274393 (+)