RNA id: TCONS_00005394


Basic Information

Item Value
RNA id TCONS_00005394
length 4200
RNA type mRNA
GC content 0.52
exon number 13
gene id XLOC_002913
representative True

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 35169644 ~ 35186310 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TGGGATATCTTCCCTCGGCGGCGCGGTGCCGCCATGTCTCCAGAAGATAAACGGCGGCTAGTCGTTTTCTCCGCTGTGGTCTTCTCTCTCTTCATTCTTTTACTCGTTTTGAGCTACATACCAGCTTATTTGTACATACTTTTTATCTGTGTCGTGTCTTGTGTCGTTTATTTTCATAAAGCGGAGGAGTTACAGCTCTTCGAGAGACTAGGCCTCAATCCACGCCGTGGCCTGAGCGTCCCGCCGGCTCTGCTGCGCTGGTTGCCGGGCAGGACTTTTAGCGGTGTCCCGGCCGCCGGCAGAAACAAGATACGCAAAAGTGATGCTAGAACCTCTTTCGCGTCACCCAGCGATAGACACTTTGTGGGCTCGTACTATAGAAGAGAGCAGCTCAGTGAGTCGGTGTTCAGCCCTCGGGATATACTCATGGGAAGTTACCTCGCCAAGCCCGAAGAAAGCCCCTCCGCCGCGGTGAGGCCCGCCGGGGGATCGGGGTCTTTCATGCACCCCAGAGAACAGCTCCGGGAGAGACTCGCCCGACCCAATCATGCCGTTCACACCCCTAACAGAAGACTGTCATTCGGGGACCCTGCAGGAAATGCGAGCCGGTTCACCATCACCCCCCAGAGACATTACCCCCTTCAACAGACAGGCACATCTCCCATTGGAGTCATGCCACCGGCAAAATGGGATGGATACCGTAAGAAGAATATCCTCACCCAACGCAATTCACCTACTGTTCACAGTCCAGTCACGGTGAAGATCGCCAGACCAGACTCCACTCGGTCATCATTctttaatcACCTGAACTCCCCTGGAGCCGTCACCTCTCCTGGGATTGGAGCACAGGCTGACCCCTGCTCCAGAGAGGCTGTCCTGAGCGTGCTCAGAGAGAGCAGGAAGAGAGAGGTTGATGAGGAGGACAAGAGTGCTTCCTCAGGGCAGAAGAGCAAAAGGAGGCGACATGACAGCAGTGGAAGTTCTCAGTCAGCGTTTGAGCCTCTTCTTGCAAATGGAGCTCCGTCTCAGCTCGTGCCAAAACCTGGCAGTCTGAAGAGAGGCATGAACTCTTCTCTCATTGAAGAGTCCATCATGAAGCGGTCTCGCACCTCCTCTGTCAGCTCTATAAGTGGTGCTCCTGTTCCCAGTGGTGTACCTGGATCTGTCCGAAATCCCATTCGCAGTTCCTACAGCTCCTCACAGGGTTATCCACAGAGACGAGCAGCATCCAGTCTCAGTCTTTCTCCCTTCACAAGCCCAGGAGGATCTCGGTGTCAGACTCCAGAGCGAGCTGCCAAGAAAGCAAGGGAGGAAGATGCTACCTCACCAAGTTCAACATCCTTCGCTAAAACGGATAAGGTGGCAGCTGATCCTGACCCTTCTCCAAATACAACTAAACTTACCCCAAAATCTGAGGCACCTGTTGCGACATCAACGTCAGACTCTGGAAGCAGCGGTGGCAAACGTAAACGCAAAATTCAGCTGGTCACCACAAACAGAGGAGATCAGATTTCTTTGCCACCACCTCCTGAGGTTGGATATACAATCACAGTGAAAGATCTAGATATGGAGAAGAAAGCCGCTCTCAGCAAGATACAGAAAGTCCTGGAGGAGCCTGaaccGGAGATTCCTCCTCCAGCATCTGAACCTGCTCCTGCCCCAGTTTCAGCTCCCACTTTATCCCTGTTCTCTCAGCCAGCTCCAATCTCCACATCCGGGACAGCACCTGCTACGAGCGTTGTTCCCTCTCTGCTTTCTCTCTCCACACCCAAGCCTGAGACCACACCAGCTATTACTACAACTCCTGCTCCAACTATTGACCTAACCATCACTGCGTCCAGCACGGCCAGCTCTGCACCTCTAACCCTCATCTCATCCCCCGCCATCACTACCGCATCTCTAACAGCTGCCACAACTGTTTCAACTGCACCAGCTTCAAGCATTTCAAACCCCCTGCTGGAGTCTCTGAAAAACATGAAGAATAATCCTCTTCTCACTGCTCCGACTCTGATGGGCACTACCACTGCAGCTCCAGCAGTGCCTGTATCCAGTCTTTCTGCTCCTGCTGCATCCATAATCCCAAGCAGTGGAGTTGTCAAGTCTGAATCGGGTCCCACTGCTCTGCAATCCTCATTCTCTGCCCCATCCTCCATATCATCACCTGCTTTCAAACCAGCCACCTCCATGCCCTCCACCTTTGCTCAGATCCTGGCCCAACCTCTTCAGCCCCCATCAACCATTTCATCGCTGGGTGGAGGCAGCAGCCTGTTTAGCTTGATCAAACCTGTGGCCACACCTGCATCTGAGCCTCCCAAGTCTACAGTTGCCGCACCTACAAACACAGCTGCATCAGTCAACAGCATTAGCAATCCTCTCTCATCTGGGTTTAAGCCCATTTTCAGTGCAGCAAGCACCACCCCTGCTTCAACACCCGAGGTCAAACCCACCCAGCCCACCTTCAAGCCTTTATTTGGCAGCACCACAATTAGTGGCGTTAGTGCATTCGGGCAGACCATCACACCGACAACATCAACCCCTGCAGCTCCAGCCTCACAGAACAGTGCGATGTTATTTGGTGGATTAACCAGTACCCAGCCAACAACAGTGCCCTCTTCTGCCGCCCCGGCCACACAGACTCCCTCCCAGTCTCTGTTTGGAAAATGGTCCACACCAACCACATCTGCTCCTGCCACAAACCCCACGTTCCAGTTTGGAGCTACATCAACTACTACGGCAACACCTGCGCTGAACACCAACACTGCTAGCGTTGGCAGCGCTAACTCCGCTTTTCAATTTGGTGCAGCAAAACCAGCTGCCGCCCCACAGGCCCAAAACACGTTCACATTTGGCCAGCAGTCCACGAACCAGAACTCCACAACAACTCCATTTGGTGGATTCGGTGTGACCAGCAATGCCACCACGTCCTCAGAAGCGCCCACAACACAAACCACATTTGGAAGCTCGACTTTCACCACATCATCCAATTTCCCAGCATCCACACCGCAGGCCCTCGCTGCTCCAAAGCCTTTCGCATTTGGAGCCGCCGGCGCAAGCAGCGGTGCATCACCGTTCACATTTGGCACCGCTGCCAGCACATCAGCACCTGCATTTGGGACTAATAGTCAGCCTGCATTTGGTGGAGTGTCATCCGGCTTTTCTTTCGGAAACACCACCACACCTTCTGCAACACCTGTCTTTGGGGCCACCACACAGACTGCGGCCCCTGCACCTGCCCCAGCACCTACGTTCACCTTTGGAGGGGcaccaacagccaatcagaacactgcACCAAGTACTCCGGCTCCTCCTGCCTCTGGAGGGTTTAACTTTGGGGCGTCACTTTCATCAACACCATTTGGGACCCCTGCGCCTGCAGCTCAACCCCAAGGGTTTTCTTTTGGAGCCAATAACACTGACAGCAAGCCTGCTTTTGGAACATCGACTCCTGCTTTTGGCCAGGCGTCTCCAGGAATGTCCATGCCATTCGGCAGTCCTGGAACACCAGGATTTGGAGCAATGGGCGGCTTGGGTGCTTCACCATTTGgtgcTTCACCAGCCAGCTTCTCTATTGGGACGGGTACTAAAACCTCTGGGGCTCGTCGATTACAAGCACGCAGGCAACACCCACGGAAGAAGTAACACAGCTGAAGTGAGTCCGACTCGTCTTTCTTGTCGTTTGGACTCTGTTACTTCCTCCGACTGTCCCAACTCTGCTGCTGGTCCAAACACAGACCTCATCTCTACAACCCTCAGACTGCCAGGGCTGGTCAGGCTTGTAGGATCAAGGCTCGTGGAGTGTAGAATTTTAGCCCAATCTCTCGCCCACCGAATCTCATCATGACCTCACTGATGGAGTCTGATGAGGGCGTCTGGTGTTGGGGAAGGATGGCGAACGGGAGTAAATTATacttgaaagaaagaaaaaaaaataagactttcaaaATCTGGACTCACACATGAATTTCAGTCCAGGCCTTTCAAAAGAAAAGGAACTTTTTTGGGTCGAGTAATCAGATGCTCTTTATTTTAAATCCGGTAATTAcaccctttttttgtttgttaacctACATGTCATGCTTTTCCATCATGCTTAGCAGAATCGTCCATTTTGTTAAGCCTTCAAAACGtgaatattttaatgtttcatttaaagCAATTTTCTTCTTTGAGTGAGCTGCATAATAAACAATCTTAATTTTA

Function

GO:

id name namespace
GO:0006606 protein import into nucleus biological_process
GO:0006405 RNA export from nucleus biological_process
GO:0005643 nuclear pore cellular_component
GO:0008139 nuclear localization sequence binding molecular_function
GO:0017056 structural constituent of nuclear pore molecular_function

KEGG:

id description
ko03013 Nucleocytoplasmic transport
ko05014 Amyotrophic lateral sclerosis
ko03019 Messenger RNA biogenesis

ZFIN:

id description
ZDB-GENE-030131-6557 Predicted to enable nuclear localization sequence binding activity. Predicted to be a structural constituent of nuclear pore. Predicted to be involved in RNA export from nucleus and protein import into nucleus. Predicted to be part of nuclear pore. Orthologous to several human genes including POM121 (POM121 transmembrane nucleoporin).

Ensembl:

ensembl_id ENSDART00000127805

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005392 lncRNA downstream 5353 35160010 ~ 35164291 (-) True XLOC_002912
TCONS_00006090 lncRNA downstream 111200 35054281 ~ 35058444 (-) True XLOC_002909
TCONS_00005382 lncRNA downstream 177216 34984618 ~ 34992428 (-) True XLOC_002907
TCONS_00005378 lncRNA downstream 192921 34965764 ~ 34976723 (-) False XLOC_002907
TCONS_00005377 lncRNA downstream 199741 34965764 ~ 34969903 (-) False XLOC_002907
TCONS_00005401 lncRNA upstream 126582 35312892 ~ 35321637 (-) True XLOC_002917
TCONS_00006091 lncRNA upstream 243194 35429504 ~ 35431655 (-) True XLOC_002919
TCONS_00005407 lncRNA upstream 464274 35650584 ~ 35654680 (-) False XLOC_002923
TCONS_00006092 lncRNA upstream 625442 35811752 ~ 35964401 (-) False XLOC_002925
TCONS_00006094 lncRNA upstream 625442 35811752 ~ 36093493 (-) False XLOC_002925
TCONS_00005389 mRNA downstream 16256 35114153 ~ 35153388 (-) False XLOC_002911
TCONS_00005390 mRNA downstream 20128 35116170 ~ 35149516 (-) False XLOC_002911
TCONS_00005391 mRNA downstream 20131 35116172 ~ 35149513 (-) True XLOC_002911
TCONS_00005387 mRNA downstream 60961 35059856 ~ 35108683 (-) False XLOC_002910
TCONS_00005388 mRNA downstream 66436 35059885 ~ 35103208 (-) True XLOC_002910
TCONS_00005395 mRNA upstream 15540 35201850 ~ 35236949 (-) False XLOC_002914
TCONS_00005396 mRNA upstream 15570 35201880 ~ 35220285 (-) True XLOC_002914
TCONS_00005397 mRNA upstream 52178 35238488 ~ 35248502 (-) True XLOC_002915
TCONS_00005398 mRNA upstream 63895 35250205 ~ 35257561 (-) False XLOC_002916
TCONS_00005399 mRNA upstream 64108 35250418 ~ 35257458 (-) False XLOC_002916
TCONS_00005381 other downstream 177230 34984618 ~ 34992414 (-) False XLOC_002907
TCONS_00005358 other downstream 842250 34327262 ~ 34327394 (-) True XLOC_002902
TCONS_00005343 other downstream 1136223 34032283 ~ 34033421 (-) True XLOC_002893
TCONS_00005331 other downstream 1792430 33377130 ~ 33377214 (-) True XLOC_002885
TCONS_00005330 other downstream 1792558 33377001 ~ 33377086 (-) True XLOC_002884
TCONS_00005403 other upstream 183527 35369837 ~ 35387242 (-) True XLOC_002918
TCONS_00005406 other upstream 434023 35620333 ~ 35620449 (-) True XLOC_002922
TCONS_00005408 other upstream 467935 35654245 ~ 35654354 (-) True XLOC_002923
TCONS_00005410 other upstream 976869 36163179 ~ 36163294 (-) True XLOC_002926
TCONS_00005427 other upstream 1301308 36487618 ~ 36502331 (-) True XLOC_002940

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000304_16838208_16848663.mRNA True 4471 mRNA 0.51 13 CI01000304 16837747 ~ 16849079 (-)