RNA id: TCONS_00000515


Basic Information

Item Value
RNA id TCONS_00000515
length 3579
RNA type mRNA
GC content 0.42
exon number 3
gene id XLOC_000316
representative False

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 26105141 ~ 26109961 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTTACGTCATTATCAACACTGCTGATATAGACCGACTGAGAGAAGTTCATCGTTTTTGGTCGTCAATaagtcttttttatattttttaaacaagttgTCAAACGAGTAACAATAAAATCCATCATAGACGATGCATTTCAGGATACCCGATTGTCGCGTAATGATCTTTAAACCAGCACGATTGTGTTAGACACGAGATGCTTCTGGCGGATTTAAGAGGATCTAAGAACTTCAAAAGTTTCAACGAATACACGAACGAGTCATGGCATCACCACAGATAAAGGAGCGGCCATCAGGTGTTGTGTTAAACACAATCTCAAAAGGAGCATCTCCAGAATCAAAATGCCCAATCTGCCTGGATCACTTTAAAAACATATCATATCTTGATGTGTGCCTTCACAAGTTCTGCTTCTGCTGCATCCATGAATGGTCCAAGAACAAAGCTGAATGCCCTTTATGCAAACAGCCATTTAATTCATTCTATCACACTATTAAGTCTGAAGATGACTACAAGAGGTTTGACCTGCGACCAACTGAAAATGGCTCATTTGGAAACATGGCAGGGCAAAGATTCAGGTATCGCACCACGCTTACAGGTGACCGCAGACCAGTACAGAGGCGAACGTCTCCTCCTCCCGACCATGGGATCATATTTGAGGGTCTGAGAGGATCTCTTCCACAACGGCACAACAGAGATCTACATAGCATGATCAGGAGGCTGACAGTAAGGCAGAGAAGAGAGAGTGAGGGTAGGTCTTTGCGAAGTCTTCAAGATCAAGAAGTGGTTAAGTTCAGACGAGCCTTGTACAGAAGAGGTGTGCAGGTCCAAAGCGTGCAGGATGGTGGGCGTACGAGAGAGACCTCAGCAGAGTTCTTCAAAAGAAATCCTGCTTGCCTCCACAGGCTTGTACCTTGGCTGAGACGAGAACTGACTGTTCTGTACGGTGCTCATGGTTCTCTGGTCAACATTGTGCAGCACATCATTATGACTCTGATCACTCGACATAACTTGGACGACCAGGCTGTTCAACATGAGCTTCGGCCCTTCTTACTGTCCCACACAGAGCACTTCTTACATGAGTTTCTCAGCTTTGCTCGATCGCCGTTCAATATGGAGGCATATGACCAACGTGCTGTTTATGACTTGCCAAGACCTTCAGGAGAAAGTAGCAGTTCGGAAAACTCTGTGATCGCCATCTCTGAGGATGAGAGCGAATCTTTAGTGTCAGGAGCCCAGGATTTTGCCACTCCTAGGGTGACCTCAAGCCAAACAGCATGGGATGATGAGACTCCAGGACCATCCTACTCTTCAGAGCGTTCTCAGGTGTTACCCGTCCACGTGAGGGACTCAGACTCTGATAGTAGTGTAGGGGAAGCAGTAATGCCTATTGCTGCAGTACGACATCAGGACCATCCAGCAAATCCTTCTACTATTCAACCAGAAGAGGATCATTCCTCTAGCAATGATGAGGACTGTGTTATTATTGGCTATGTTAAGCCCGTGGCAGAGAGGACACCAGAACTGGTCCAGCTTTCTTCTGATTCTGAAAATTCCGAGACTGAGCAGAATGCAAGTCCACGAAACTCTCAAGCTCCCCAACACATTCGTTTTATTTCAGATTCAGATGCATCACCCACTGCCTCACAGAGACCCTTGAGGGGGCCAGCAAGTTCTTCACGCTCATTTGAAGACACCTCCATACAACTTAGAAAAAACAGTAAATATGACAATACTTTTTCAGGATCTAGAGAAGGATCCTCACAAAGCAAAAGGATACACTCTTCGTCTCATAGAAAGAAGCAACCATTGTGTAAAGAGAGCAAGAATAAGCAGAGAGGGGAAAAGGAAACAAGTCGTCACTCTTCATCCTATTGGCATTCTTATAGCTATTACAGTCATGACAACAGCAGAAAAGCTTATACAGAAACAAGCTCATCTTATACAAGCTACTACAGAAgtgtaaatgatcagtttggTTCTCGATCACACGGCAAAAGAAGATGTAGGGACCTTCTGGACAGAAGTCGCTCAAGGAGTAATTCAAGAATAAGCCAGTCGAATCGGCGTAATAGGAGTCGCTCAAGGAGTAATTCAAGAATAAGCCGGTCCAATCAACGGAATAGAAGTCACTCAAGGAGTAATTCTGGAAAAAGCCAATCCAATCGGCGTAATAGAAGTTGTTCAAGGAGTTATTCAAGAACAAGCCCATTTAATGAACGGAATAGAAGACACTCAAGGAGTAATTCTAGAAAAAGCCAATCCAATCGGCATAATAGAAGTTGTTCAAGGAGTTATTCAAGAACAAGCCCATTTAATGAACGGAATAGAAGACACTCAAGGAGTAATTCTAGAAAAAGCCAATCCAATCGGCATAATAGAAGTTGTTCAAGGAGTTATTCAAGAACAAGCCCATTTAATCAACGGAATAGAAGACACTCAAGGAGTAATTCTAGAATAAGCCAGTCCAGTCGGCAGAACAGAAGTCTCTCAAGGAGTAATTCTAGAAAAGGCTATTCAAATCGGCGGAACAGAAATCATTCTAGGAGTAGTTCTAGAGTAAGCCAGTCCAGTCAGCGGAACAGAAGTCACTCAAGGAGTAATTTTAGAATCAAGTCTAGCTCCTACAAAAGTCAAGATGAAAAATATCAAAGAAGCCTTTCTAGATCCCTTTACTCCAATAATGATGTCAGAAGTCGCTCAAGAAGCAGTTCCAGAATAAACACCTCTAGCCGCCAGGACCGAAGACGCTCAAGGAGCAGTTCTAGAATGAATTCCAGCTCCTCACGCCAGACATCATGCCACgataaatatggtaaaaaaaggATGTACAAAACAAAGCATCATGAGAAACCCTCAAGGCAGAGTTCTAGTAAATCGGTTGGCGATTCTGATGAAGTaggtggaaaaaagaaaaaaaagaagcatacTAAAAGGAGGAAAACTAGAAGTCCAAGCATAGATGACAGATCTGAGGGCCACAGTCAGAGACATCACAAGAGGAAGAAGAAACACAAGAAGAAGAGCAAGAGACATAACAGTAAGGAGAGGACGAGAAAGCTCAGCCCTGTTCTCATTACAATTACTACTGACAGTGATGGTGAAAGTGCTGACCCCAGTGAACCCTCAACCAGCAGTGTTTGTGCCATTAGATCTACTGTCTTAATAGCAAACATGGCTACAGAAGCTTTCCTAGACAATGAGCATCAGTCAACAGCTGGAACTGAAAATAGTTCTGTGGGTGATGCAGGAAATTACCCCTAGTCTGCTAAACTCCATTGCCATCATGATTTTGTACACAACGTTTTTGTGAACTTTTCAACTTGTTAATTCAGatacttttcttttttgtgtgatggccaaatgcattttatttttaataaacagagAAGGGTTGGACTTTAAATGTGATGATTatgatttgatttctttttttgaatACAAAATTTTTAGAGAATGTATGTACATGTACATTACAGATTTTAAAATTTCAAACCTGCAAGCAGGTTCAAAGTCACCAATTTTTAAACTGTtcgttttttatttgattgtttcaAATAAATTGAAAAGGCTAATCTAAA

Function

GO:

id name namespace
GO:0006513 protein monoubiquitination biological_process
GO:0000209 protein polyubiquitination biological_process
GO:0010842 retina layer formation biological_process
GO:0046872 metal ion binding molecular_function
GO:0061630 ubiquitin protein ligase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-6401 Predicted to enable ubiquitin protein ligase activity. Acts upstream of or within retina layer formation. Is expressed in photoreceptor inner segment layer; retinal ganglion cell layer; retinal inner nuclear layer; and retinal outer nuclear layer. Human ortholog(s) of this gene implicated in retinitis pigmentosa 31. Orthologous to human TOPORS (TOP1 binding arginine/serine rich protein, E3 ubiquitin ligase).

Ensembl:

ensembl_id ENSDART00000102379

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00000514 lncRNA upstream 4116 26099293 ~ 26101025 (+) True XLOC_000315
TCONS_00000510 lncRNA upstream 255906 25848615 ~ 25849235 (+) True XLOC_000312
TCONS_00000508 lncRNA upstream 292182 25804642 ~ 25812959 (+) True XLOC_000311
TCONS_00000505 lncRNA upstream 312428 25783801 ~ 25792713 (+) False XLOC_000310
TCONS_00003074 lncRNA upstream 383439 25719653 ~ 25721702 (+) False XLOC_000308
TCONS_00000525 lncRNA downstream 357110 26467071 ~ 26473854 (+) False XLOC_000321
TCONS_00000530 lncRNA downstream 357292 26467253 ~ 26474380 (+) False XLOC_000321
TCONS_00000532 lncRNA downstream 385680 26495641 ~ 26496930 (+) True XLOC_000321
TCONS_00000533 lncRNA downstream 441073 26551034 ~ 26554839 (+) False XLOC_000322
TCONS_00003075 lncRNA downstream 441713 26551674 ~ 26553638 (+) False XLOC_000322
TCONS_00000513 mRNA upstream 1909 26099250 ~ 26103232 (+) False XLOC_000315
TCONS_00000512 mRNA upstream 8569 26071869 ~ 26096572 (+) True XLOC_000314
TCONS_00000511 mRNA upstream 59426 26012668 ~ 26045715 (+) True XLOC_000313
TCONS_00000509 mRNA upstream 253566 25848231 ~ 25851575 (+) False XLOC_000312
TCONS_00000507 mRNA upstream 263482 25801648 ~ 25841659 (+) False XLOC_000311
TCONS_00000517 mRNA downstream 1024 26110985 ~ 26127944 (+) False XLOC_000317
TCONS_00000519 mRNA downstream 246244 26356205 ~ 26398581 (+) False XLOC_000318
TCONS_00000520 mRNA downstream 246244 26356205 ~ 26402046 (+) False XLOC_000318
TCONS_00000521 mRNA downstream 246399 26356360 ~ 26387308 (+) True XLOC_000318
TCONS_00000522 mRNA downstream 301535 26411496 ~ 26437820 (+) True XLOC_000319
TCONS_00000495 other upstream 984936 25120089 ~ 25120205 (+) True XLOC_000301
TCONS_00000490 other upstream 1720444 24382967 ~ 24384697 (+) True XLOC_000295
TCONS_00000480 other upstream 1990583 24114525 ~ 24114558 (+) True XLOC_000287
TCONS_00000478 other upstream 2238176 23866878 ~ 23866965 (+) True XLOC_000285
TCONS_00000472 other upstream 2353928 23751099 ~ 23751213 (+) True XLOC_000283
TCONS_00000518 other downstream 1424 26111385 ~ 26119624 (+) True XLOC_000317
TCONS_00000557 other downstream 1603388 27713349 ~ 27730980 (+) False XLOC_000329
TCONS_00000565 other downstream 1867409 27977370 ~ 28001937 (+) False XLOC_000332
TCONS_00000567 other downstream 1874432 27984393 ~ 27995611 (+) True XLOC_000332
TCONS_00000579 other downstream 2958701 29068662 ~ 29080336 (+) False XLOC_000337

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000300_10682604_10685243.mRNA True 3958 mRNA 0.41 1 CI01000300 10681317 ~ 10685274 (+)