RNA id: TCONS_00046319


Basic Information

Item Value
RNA id TCONS_00046319
length 588
lncRNA type retained_intron
GC content 0.46
exon number 2
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

ATGCCTTCAGGAAATCTGCAAATAGCCAATGCTACACGGGACGACGAGGGCCCGTATATTTGTGCTGCTTACAACCCCGTCACGCAGGAAATAAAAACTTCCACCTCTACTGACCGTCTAAGAATACGACGGTCAACTTCTGAAGCGGCTCGTATCATCTATCCTCCGGCATCACGCTCCATTATGGTGAATAAAGGCCAGCGGCTTGTGCTGGAGTGTGTGGCCAGCGGGATTCCCACTCCACAGGTCACATGGGCTAAAGACGGCCTGGACTTGAGGAATCATAACAACACCAGATTCTTGCTCAGCAATTTGTTGATTGATGCTGCAAGCGAGAGCGACTCGGGCACTTACGTGTGTCTCGCTGATAATGGCATCGGCTCCACAAGCTCTGCTCAAGTGCTGTACGATGTGCAGGTGTTCGGTGAGTGCGATAAGAATGATGGGAAGAGTTTCTGATTATGGGGGTATTAAGAGCTTTATATGGAGGTCAAATATGAGACGACATTATTTAGTGTCTGcatcaaaaactgttttttttttttaactgtttaaactacctaattaaaatgagctgacacaacacaa

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 ENSDART00000149815

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00046315 lncRNA downstream 87137 21137175 ~ 21139396 (-) False XLOC_023418
TCONS_00047175 lncRNA downstream 725232 20450027 ~ 20501301 (-) False XLOC_023407
TCONS_00046291 lncRNA downstream 725232 20470778 ~ 20501301 (-) False XLOC_023407
TCONS_00046288 lncRNA downstream 755542 20450615 ~ 20470991 (-) False XLOC_023407
TCONS_00046290 lncRNA downstream 757243 20450838 ~ 20469290 (-) False XLOC_023407
TCONS_00046855 lncRNA upstream 102063 21331016 ~ 21369754 (-) False XLOC_023421
TCONS_00046322 lncRNA upstream 139258 21368211 ~ 21369580 (-) True XLOC_023421
TCONS_00046337 lncRNA upstream 382649 21611602 ~ 21620256 (-) True XLOC_023424
TCONS_00047177 lncRNA upstream 824856 22053809 ~ 22066831 (-) True XLOC_023442
TCONS_00046366 lncRNA upstream 842268 22071221 ~ 22074272 (-) False XLOC_023443
TCONS_00046317 mRNA downstream 54411 21154120 ~ 21172122 (-) True XLOC_023419
TCONS_00046313 mRNA downstream 76364 21131874 ~ 21150169 (-) False XLOC_023418
TCONS_00046314 mRNA downstream 76433 21132981 ~ 21150100 (-) False XLOC_023418
TCONS_00046312 mRNA downstream 94926 21122836 ~ 21131607 (-) True XLOC_023417
TCONS_00046309 mRNA downstream 135949 21058779 ~ 21090584 (-) False XLOC_023416
TCONS_00046321 mRNA upstream 101800 21330753 ~ 21343982 (-) False XLOC_023421
TCONS_00046323 mRNA upstream 142326 21371279 ~ 21471389 (-) False XLOC_023422
TCONS_00046324 mRNA upstream 143440 21372393 ~ 21470766 (-) False XLOC_023422
TCONS_00046325 mRNA upstream 143440 21372393 ~ 21487609 (-) False XLOC_023422
TCONS_00046326 mRNA upstream 143440 21372393 ~ 21490628 (-) False XLOC_023422
TCONS_00046316 other downstream 82233 21139322 ~ 21144300 (-) True XLOC_023418
TCONS_00046297 other downstream 567865 20647475 ~ 20658668 (-) False XLOC_023409
TCONS_00046286 other downstream 694947 20450027 ~ 20531586 (-) False XLOC_023407
TCONS_00046292 other downstream 755443 20470954 ~ 20471090 (-) True XLOC_023407
TCONS_00046277 other downstream 1039103 20187316 ~ 20187430 (-) True XLOC_023401
TCONS_00046357 other upstream 734099 21963052 ~ 21963168 (-) True XLOC_023437
TCONS_00046358 other upstream 735097 21964050 ~ 21968116 (-) False XLOC_023436
TCONS_00046365 other upstream 842268 22071221 ~ 22097763 (-) True XLOC_023443
TCONS_00046371 other upstream 1079991 22308944 ~ 22309058 (-) True XLOC_023445
TCONS_00046372 other upstream 1143033 22371986 ~ 22372100 (-) True XLOC_023446

Expression Profile

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