RNA id: TCONS_00046318


Basic Information

Item Value
RNA id TCONS_00046318
length 4356
RNA type mRNA
GC content 0.49
exon number 19
gene id XLOC_023420
representative False

Chromosome Information

Item Value
chromosome id NC_007135.7
NCBI id CM002908.2
chromosome length 42172926
location 21206243 ~ 21258945 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TCCTTTCAATGCAAGAAGTTGGGGAGCCGAAGAAAATGTCGGTGCTGCTGCAGCAGTAAATTACTGAAGCAGTAGCGGTTTAAGGGGAAAAAGAGGAGGAATTGGAGTTTTCTTGGATTAAATAGTGGGAAACGTTGGGAAAAGTCGAACTCCGAGAAACTGGTGGATTCAACTCCAAACTACTGCACGTTTTTggGGTAGTGTATGGAAGATGTCTGGGACATTGAATTGGATTCCCTGGGAAAGAAAGCGGAAGATTCGAGTGCTCTGTTCCCTGTGTGTGCTGCTGTTCTGCCTGCAGGATAGTAATGCTGTTACAGATGACGTTCCAGTGTTCACTGAGGAGCCGTTCTCGGTGGTACAGAAGCTGGGGGGCAGCGTGACCCTGCGCTGCAGTGCCCTGCCTAACCATGTCAACATCAGCTGGCATCTGAATGGCAAAGAGCTGCCAGCTGGGGGCGACGAGGAGCTGGGAGTGCTGGTGCGGCCCGGTTCTCTCTACATCCCCTCCCTTACAAACCTCACCGTGGGCAGATACCAGTGTGTGGCCACCACCAGCGTCGGGTCCTGCGCGAGTGTGCCGGCCAATGTTACTGCAGCGAaacTGCGGGATTTCGAGCCTGACGACCAGCAGGAGATTGAGGTGGATGAAGGGAACACAGCAGTAATCGAGTGCCATCTGCCTGAGAGTCAGCCTAAAGCTCAGGTCCGCTACAGTGTCAAGCAGGAGTGGCTGGAGACCTCTAAAGGGAATTACCTGATCATGCCTTCAGGAAATCTGCAAATAGCCAATGCTACACGGGACGACGAGGGCCCGTATATTTGTGCTGCTTACAACCCCGTCACGCAGGAAATAAAAACTTCCACCTCTACTGACCGTCTAAGAATACGACGGTCAACTTCTGAAGCGGCTCGTATCATCTATCCTCCGGCATCACGCTCCATTATGGTGAATAAAGGCCAGCGGCTTGTGCTGGAGTGTGTGGCCAGCGGGATTCCCACTCCACAGGTCACATGGGCTAAAGACGGCCTGGACTTGAGGAATCATAACAACACCAGATTCTTGCTCAGCAATTTGTTGATTGATGCTGCAAGCGAGAGCGACTCGGGCACTTACGTGTGTCTCGCTGATAATGGCATCGGCTCCACAAGCTCTGCTCAAGTGCTGTACGATGTGCAGGTGTTCGAGCCTCCTCAGGTGCGTGTGGAGCTGCAGCAGCAGGACGTGGCGTGGGGGGATACAGTGCGCTTCAGCTGTCAGGTGAGGGGCAAACCTGCGCCCACTGTGGTTTGGCTCCACAACGCTCAGCCGCTGAGCCCATCGCCCCGCCATCGGGTGTCTGCACAGGTGCTGCGTGTGCTCAATGTCGGCCCACAAGACGATGGCATGTACCAGTGCATGGCGGAGAACGGTGTGGGCAGCTCACAGGCAGCTACACGACTCCTCACTCTGCCTACAGTGCCCTCTCGAAAGATGCCCATGATTCGTCCCCTGAGTCCAGATAAGGTGTTGCGTGAGCAGCCGCCGCTGAAGCCACCAGTGTCCACCAGTGCGGTGCTGCCCTTCGACTGCTCTGAAGTACGAGTCTCTCCTGCTGAAGCTCCAGTCATTCTCAGTCAGCCGCGCACAGGCAAAGCAGATTACTATGAACTGACTTGGAAACCCCGTCATGATGGAGGAGCGCCTGTGCTGGAGTACATCATCAAGTACAGAAAGGCCGGAGAGTCTCCTGGAGAGTGGACCACCAACACTATTTCAGGGTCTCAGCACAAGCTCATACTAACCAAACTGCAGCCTGCCAGCCTCTATGAAGTGGAAATGGCTGCTAGGAACTGTGCTGGACTCGGGCAGCCTGCCATGATGACCTTCAGGACAGGCAAATGGCGAAGAGGGGGACCAATAGGACCTCCAAAAACACCAGTGGTGCAGCCTCGTCTCTCTCCTCCAGAAGCTCCAGACAGACCCACAGTGTCGATGGCCACCGAGACCTCCGCTTATGTGACGTGGATCCCTCGAGGGAATCGCGGTTTCCCCATCCAGTCGTTCCGCGTGGAGCACAAGAAGCTGAGGAAGGGCAGTGGAGACTGGGAGGTGGCGGTAAACAACATCCCTCCGTCCCGACTCTCGGTGGAGGTCACCGGCCTGGAGAAAGGAACATCATACAAGTTTAGAGTTTTGGCTGTTAATGTGTTGGGAGCGAGTCCACCCAGCGCCCCCTCCAAAGCCTACACAGTGGTGGGCAGCGGGCCTCCAAACAGACGTCCCATTGACGGACCCTACATCACCTACAACGAAGCCATCAATGAGACCACAATCATCCTCAAATGGACGTACACTCCACTCAATAACACCCCCATTTATGGATTCTACATCTTCTACCGACCCACCGATAGTGACAACGACAGCGACTACAAAAAAGATGTGGTGGAAGGTGACCGATATTGGCACTCCATCACAGACCTACAACCCGAAACAGCTTATGACATTAAGATGCAGTGTTTCAATGAAGGAGGAGAGAGCGAGTTCGGCAATGTCGTCATTTTAGAAACTAAAGCTCGCCCTCACCAGAGGACCACTCCCCCGGAGACTGCATCATCCAGACCCGAGCATCCAGGAAACCCTGTTCCCCGGCCTGGAGATCTGCCTTACCTCATAGTGGGTGTTGTGCTCGGAGCGTTCGTTTTCATCATCGTGGCATTCATCCCAATCTGCCTGTGGAGAGTCTGGGCTAAACAAAaACAAACATTAGACATGCGCTTTCCAACTCTGGCCGCTACGGTTTCTCCATGCCAGTATACCATGGTCCCGCTGCAGGGATTGGCTCTGGGTCGGGCCTGTCCTGTAGACCCTCATCTGAGCCCGTCCCACACCGTATACGCTCCTAAAGCAGAATACATTCCCAATGGAAAACATGCCGCTCAGCGCCTGCCACCTGGACACCAGGAGGATCCCAACTATGAGCTGGAGTGTGATGCTCTGCTGCCTCAGAACCTTCCCAATCAGCAACAAAACATTCACAATTACTGTAACGGGGTTCCTGGCTGTCCTGAAGAGGGGTTCTGTGTGTCTGATGATTCTCCTCTGCGGCTCTTCAGTCTGTCAGACGCTCCACTGCAGTCTCAGGACGACCACTCGCTCAACGAATGCATTCACACAGAAGAAGAGCTCACTGCCGATTTAACCCTGTTATCAATAGCCGAGGCCAGCATAAACCGGCTACTCCAACAAGCTGAGCCACAACAAGAGGGAACAACTGAGAACACAAAGCAGCTTGAGGAACAAGGGACACATGATCCAGAAGATGGATGAAACAAGAATACTACAACAAAAAGGAGGATTAAAAAAGagaaactatttatttttgtataacagaggctgtatttatatatttatgtatttgtacatatattttttttagaatgtgtgtgtatatacaggtTGTTTATATCAGATGATTTACGTATTTTGGTATGATTGTCTGTTACCATCTggactttttactttttaatataagCATGCTGTATAAATGATCCTCATGTGAGAAAAAGGAACAACCAGACACCTCAACAGCGTACATACAGTATCTGAAATAAGCTGTAGATTTTCCACTGGTAAGCGTTTGCTGATCTTTGAAGTACAGCTGGTGGGAAATGGAATGCTTGAAGGGCATTATGATAGTAATGATCCATTCAGTAGGAATGTACCAATGGGGACGACGTTGcatccaaaacaaaaaaaagacataatcTAGTATGTGTACGCCCTATATGCACAGTATGTTGTATCCAAGTACATTTAAGGGCTTTATGCTACTGTGAGGATTAAACACACAATGAATAAAACGGTTGAGAACTTTTTTTTGATTGTAACTTTGTTCCAGATGCTTTGTCGGTACAGTGTTTTACAGCTTTGTACATATGTTACTAAGATTTAtctattttcatcatcattaacataaatgttaacaaatataTGCAAAGTATATGCATTCTGTGTGTAGTAATATTCattatcagagagagagagagagagagagagaccataTATTGTaggtatttatatattttgctgtaGTCTGGATGTGAACTcttcaaaaaaaacaacaacagaaaaaaaaaacatgctgatcATGCTGATGTTGACAAATATTTGAAACTGGTTTGTAGTCCACTTTTAGTTGTACTTTTACTTTTGGAAACTTGCAGTTCTCTTTCATCAGTGTTAGCTTTTTCCCAGTTGTTATGACAACAAGAAACATGAAGGAAACGATCAGTCTCTGACATATTCCCCAAGTGTAGCTGCATGGTTACATGGATTGAGCACTATTGCCTGTAAATAAAGCTAAAGAAATCAGA

Function

GO:

id name namespace
GO:0007224 smoothened signaling pathway biological_process
GO:0031290 retinal ganglion cell axon guidance biological_process
GO:0008589 regulation of smoothened signaling pathway biological_process
GO:0007411 axon guidance biological_process
GO:0045663 positive regulation of myoblast differentiation biological_process
GO:0005887 integral component of plasma membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005515 protein binding molecular_function
GO:0042802 identical protein binding molecular_function

KEGG:

id description
ko04340 Hedgehog signaling pathway
ko04360 Axon guidance

ZFIN:

id description
ZDB-GENE-030131-6560 Enables identical protein binding activity. Acts upstream of or within regulation of smoothened signaling pathway and retinal ganglion cell axon guidance. Predicted to be located in membrane. Predicted to be integral component of plasma membrane. Is expressed in several structures, including anterior neural keel; nervous system; neural plate; neural rod; and neural tube. Orthologous to human BOC (BOC cell adhesion associated, oncogene regulated).

Ensembl:

ensembl_id ENSDART00000111025

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00046315 lncRNA downstream 66847 21137175 ~ 21139396 (-) False XLOC_023418
TCONS_00047175 lncRNA downstream 704942 20450027 ~ 20501301 (-) False XLOC_023407
TCONS_00046855 lncRNA upstream 72071 21331016 ~ 21369754 (-) False XLOC_023421
TCONS_00046322 lncRNA upstream 109266 21368211 ~ 21369580 (-) True XLOC_023421
TCONS_00046337 lncRNA upstream 352657 21611602 ~ 21620256 (-) True XLOC_023424
TCONS_00047177 lncRNA upstream 794864 22053809 ~ 22066831 (-) True XLOC_023442
TCONS_00046366 lncRNA upstream 812276 22071221 ~ 22074272 (-) False XLOC_023443
TCONS_00046317 mRNA downstream 34121 21154120 ~ 21172122 (-) True XLOC_023419
TCONS_00046313 mRNA downstream 56074 21131874 ~ 21150169 (-) False XLOC_023418
TCONS_00046314 mRNA downstream 56143 21132981 ~ 21150100 (-) False XLOC_023418
TCONS_00046312 mRNA downstream 74636 21122836 ~ 21131607 (-) True XLOC_023417
TCONS_00046309 mRNA downstream 115659 21058779 ~ 21090584 (-) False XLOC_023416
TCONS_00046321 mRNA upstream 71808 21330753 ~ 21343982 (-) False XLOC_023421
TCONS_00046323 mRNA upstream 112334 21371279 ~ 21471389 (-) False XLOC_023422
TCONS_00046324 mRNA upstream 113448 21372393 ~ 21470766 (-) False XLOC_023422
TCONS_00046325 mRNA upstream 113448 21372393 ~ 21487609 (-) False XLOC_023422
TCONS_00046326 mRNA upstream 113448 21372393 ~ 21490628 (-) False XLOC_023422
TCONS_00046316 other downstream 61943 21139322 ~ 21144300 (-) True XLOC_023418
TCONS_00046297 other downstream 547575 20647475 ~ 20658668 (-) False XLOC_023409
TCONS_00046286 other downstream 674657 20450027 ~ 20531586 (-) False XLOC_023407
TCONS_00046292 other downstream 735153 20470954 ~ 20471090 (-) True XLOC_023407
TCONS_00046277 other downstream 1018813 20187316 ~ 20187430 (-) True XLOC_023401
TCONS_00046357 other upstream 704107 21963052 ~ 21963168 (-) True XLOC_023437
TCONS_00046358 other upstream 705105 21964050 ~ 21968116 (-) False XLOC_023436
TCONS_00046365 other upstream 812276 22071221 ~ 22097763 (-) True XLOC_023443
TCONS_00046371 other upstream 1049999 22308944 ~ 22309058 (-) True XLOC_023445
TCONS_00046372 other upstream 1113041 22371986 ~ 22372100 (-) True XLOC_023446

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000018_04397198_04411105.mRNA True 3599 mRNA 0.50 18 CI01000018 4396649 ~ 4411105 (-)
rainbow trout (Oncorhynchus mykiss) TU1081301 True 332 lncRNA 0.47 2 NC_048575.1 15747353 ~ 15769715 (-)