RNA id: TCONS_00045365


Basic Information

Item Value
RNA id TCONS_00045365
length 1822
RNA type mRNA
GC content 0.39
exon number 10
gene id XLOC_022818
representative False

Chromosome Information

Item Value
chromosome id NC_007135.7
NCBI id CM002908.2
chromosome length 42172926
location 12133814 ~ 12253332 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GATGGGTTTGTCTCcataaaacaacaagaagaagagCGCTCCGTTTCCAAGCACCAACCAGAAGCACATCAAGACTTCTTTTTACAGTTCATCTCCTGGGCTTTAAAATCGATTCTTCTGTTTTCATGACTCGAAACATGGTTAAGAACTATATTTTATTCTAGAGATTATATTTTATCTTCTTCTCCCGAGTAAACTCCTCCGCGTCACACTACTGCAATGGCTGATTTTGGTTTTAATGAACACCATCAGCATGAGGTGATAAACTACATGCGATTTGCCCGCTCTAAACGGGCCCTTAGACTGAAGACTGTCGACTCCTGTTTTCAAGACCTAAAGGAAAGTAGGCTCATAGAAGAGACATACACAGTGGACGAGGTGACTGATATTCTAAATGGGCTTCAGGTTTTGGTGCGTGGAGAAGTGGAGATGGAACTCATAAACACAGCTCACACTAACGTGCTGCTGCTGCGACAACTTTTTTCTCAGGCTGAGAAATTCTACCTAAGGCTGCAGACAGACATTTCAGAGCTGGAGAACAGAGAGTTGCTGGAGCAAGTAGCTGAGTTTGAGAAGACTGATTTCAAACCCAACATCAAGGCAAACCAGGAGACCACTAAGCCAAAATTAGCACCGCTGAATGAAGGAGGTGTTTCTGAACTACTACAGAGGgaaATTTCTAGACTACAAGAGGACAATGACAAATTGAAAGCCAGACTGAGAACCCTGGAATCTCGGGCCATGTGTGCTTTAGAGGACAAATCCAAAGCAGAGACGGCCTTGAAAGATCTTCAAAAAAGTCAAGGAGTACATCAgTCCGTAATGTGTGCTCAAGAGATTGCAAATCTTGAAGACACAGTTGCAGCAATGCAGGCTGACTTTGAAAAGACCCTGAATACCAACATTACTTCTCAGAAAGACCTGCAGGACAGCCTGGTGTCTACTAAACATGACTTGCTTCGTGTCCAGGAGCAGCTATCCCTTGCTGAGAAGGAACTGGAAAAGAAATTTCAGCAGACAGCTGCGTACCGCAACTTGAAGGAGATTCTCAATAAAAAGAATGAACAGATTAAAGACCTGAGAAAGAGACTACTAAGatatGAATCAGCTGAGTGAACAAGCAACCCACAGGAAACTCATGAAGAGGTCATAAAGaatttttaagcatatttaagCAAGCTGAagtctttttttctgtaaagggacacatttaaaaaaaacaggacCAAATTATGAGAAACAagaatttgcaaaaataaactgtcATCCCCATTGATGAGATGAGCTTTTTTGGGTCTGATACATAAGTTACACAATGTTGTAAGTTTTGCTGCTTTACACTAGATTAGAAATACTTCACTCAAACAAGAGCACAATTGATTGTAACACTTTAGTTGATCACATTCCAcactataaacaatttattaactAGCACTATTAGATTAATACACTACTAATTACCTGTTTATTAATAGTATAGTAGAAGTTGGGGATTAGgatttgggtaggattaggaatgcAAAAGATTGTACTTTGACTACGAATGAACAGTTATTgtcttaataatagacaggtaataagtCAGTAGTAAAtaacatgaattgtgacctaactaaagtgttacccaagtaACTAGTTTTTCATTGTAGGGCTTGTTACTCAGATGTGATTTTTACATGTACCTAATTTTTACATTGAAGATTGTGGGCTCGCATTACTAAGGAGAAAACAATGTCCAGTGCTTTTTTCATGTTTACCTGATTAATATAGCTTCACTTCTGTCAGTTTCATGTTTCTGAGTAAAAAATAGCAATTGATATGT

Function

GO:

id name namespace
GO:0045879 negative regulation of smoothened signaling pathway biological_process
GO:1903565 negative regulation of protein localization to cilium biological_process
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component

KEGG:

id description
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-030131-945 Acts upstream of or within negative regulation of smoothened signaling pathway. Located in cytoplasm and nucleus. Is expressed in several structures, including gill; integument; liver; muscle; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in Bardet-Biedl syndrome 17. Orthologous to human LZTFL1 (leucine zipper transcription factor like 1).

Ensembl:

ensembl_id ENSDART00000168248

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00045362 lncRNA upstream 1409 12129726 ~ 12132445 (+) True XLOC_022817
TCONS_00046799 lncRNA upstream 31716 12095530 ~ 12102138 (+) True XLOC_022816
TCONS_00046946 lncRNA upstream 73400 12055030 ~ 12060454 (+) False XLOC_022814
TCONS_00046945 lncRNA upstream 175721 11956998 ~ 11958133 (+) True XLOC_022813
TCONS_00046798 lncRNA upstream 190526 11942864 ~ 11943328 (+) True XLOC_022812
TCONS_00046801 lncRNA downstream 38404 12291736 ~ 12292535 (+) False XLOC_022820
TCONS_00046800 lncRNA downstream 38404 12291736 ~ 12292535 (+) True XLOC_022820
TCONS_00046947 lncRNA downstream 600054 12853386 ~ 12854192 (+) True XLOC_022824
TCONS_00045375 lncRNA downstream 700503 12953835 ~ 12954480 (+) True XLOC_022826
TCONS_00046948 lncRNA downstream 1101929 13355261 ~ 13600272 (+) True XLOC_022832
TCONS_00045361 mRNA upstream 48853 12075009 ~ 12085001 (+) True XLOC_022815
TCONS_00045359 mRNA upstream 50502 12074340 ~ 12083352 (+) False XLOC_022815
TCONS_00045360 mRNA upstream 51035 12074366 ~ 12082819 (+) False XLOC_022815
TCONS_00045357 mRNA upstream 212670 11908833 ~ 11921184 (+) False XLOC_022811
TCONS_00045356 mRNA upstream 214563 11908480 ~ 11919291 (+) False XLOC_022811
TCONS_00045369 mRNA downstream 436831 12690163 ~ 12734583 (+) True XLOC_022821
TCONS_00045370 mRNA downstream 487516 12740848 ~ 12752502 (+) True XLOC_022822
TCONS_00045371 mRNA downstream 582603 12835935 ~ 12842103 (+) True XLOC_022823
TCONS_00045372 mRNA downstream 640950 12894282 ~ 12918330 (+) False XLOC_022825
TCONS_00045373 mRNA downstream 659997 12913329 ~ 12915033 (+) True XLOC_022825
TCONS_00045358 other upstream 72502 12058002 ~ 12061352 (+) True XLOC_022814
TCONS_00045354 other upstream 508987 11622196 ~ 11624867 (+) False XLOC_022810
TCONS_00045353 other upstream 509932 11622196 ~ 11623922 (+) False XLOC_022810
TCONS_00045355 other upstream 510433 11622575 ~ 11623421 (+) True XLOC_022810
TCONS_00045352 other upstream 519481 11614257 ~ 11614373 (+) True XLOC_022809
TCONS_00045382 other downstream 764327 13017659 ~ 13068380 (+) True XLOC_022829
TCONS_00045390 other downstream 1671734 13925066 ~ 13965939 (+) False XLOC_022836
TCONS_00045400 other downstream 2097568 14350900 ~ 14351020 (+) True XLOC_022840
TCONS_00045413 other downstream 2370499 14623831 ~ 14636303 (+) True XLOC_022846
TCONS_00045414 other downstream 2381971 14635303 ~ 14635419 (+) True XLOC_022847

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000327_04429751_04432240.mRNA True 545 mRNA 0.43 6 CI01000327 4429690 ~ 4432240 (-)
bowfin (Amia calva) TU46856 True 431 lncRNA 0.38 3 CM030124.1 46548815 ~ 46550555 (+)