RNA id: TCONS_00051549


Basic Information

Item Value
RNA id TCONS_00051549
length 781
lncRNA type retained_intron
GC content 0.38
exon number 3
gene id XLOC_026451
representative False

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 31104891 ~ 31115996 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ttttaatttcGCAAAACATTTATTACTTGCTATTGTGGTGGTTAAATGTATTTTAGATATTGTAATTAATTAGTTCTAGTTTGGGGAGGGTTTTGAGGAGTCTaattatctatttttttgttcCTGCACAGGACCACAGAACAGCAGCAGCGTTTTCATGAGATCTGTGGAAACCTTGTGAAGACTCAGCGCCGTGTGCTCGGCTGGTGGAAACGTCTGTTTGCCCTGAAGGAAGAAAAGCCAAAAATGTATTTCCTCTCTGTGATCAGCAGTCTTGTGGCTGTGGCCTGGATTGGACAACAAGTTCATAACCTCTTCCTCACCTACCTGATAGTGAGTTTCCTTCTGCTGCTTCCTGGCCTCAACCAGCATGGCATCATCACCAAATATGCTGGCATGGCAAAGAGAGAAATCAACAAACTTCTTAAACAGAAGGAGAAGAAGAACGAGTAAAAGATAAAGCTCGAGTGAAAACAATTCAGAAGGCTGAAAATTCAGACAAATTTGAGTTTAATGTGGTCATCTTCCCTGCTTATCGTCAAATTTCCACAGACCAACGTAAAGCTTTTGCAGAAACTAAGCTGATAGTGATAAGTAACATCTAGAGAACAGCTTAAATGTATGCAGAGATCTCTTAAGGTTCACGTATAACTTTGTTTTTAGGTTTCAGTTTGAAGTATACATTTGTTTTCCatcaaaagtgttttattttttcaatgctGAAATACTCATTTCAGCTCTTACAGTCATGTATATTTGCATGTCATAGCACATTTAATAA

Function

GO:

id name namespace
GO:0006613 cotranslational protein targeting to membrane biological_process
GO:0001755 neural crest cell migration biological_process
GO:0014032 neural crest cell development biological_process
GO:0060042 retina morphogenesis in camera-type eye biological_process
GO:0005784 Sec61 translocon complex cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005515 protein binding molecular_function

KEGG:

id description
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-040426-1087 Acts upstream of or within neural crest cell migration and retina morphogenesis in camera-type eye. Predicted to be located in membrane. Predicted to be part of Sec61 translocon complex. Predicted to be integral component of membrane. Is expressed in several structures, including blastodisc; central nervous system; hypochord; optic cup; and retina. Human ortholog(s) of this gene implicated in hereditary spastic paraplegia 61. Orthologous to human ARL6IP1 (ADP ribosylation factor like GTPase 6 interacting protein 1).

Ensembl:

ensembl_id ENSDART00000145382

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00053052 lncRNA downstream 11604 31093212 ~ 31093764 (-) True XLOC_026450
TCONS_00051546 lncRNA downstream 23001 31080680 ~ 31082367 (-) False XLOC_026449
TCONS_00053051 lncRNA downstream 47078 31041952 ~ 31058290 (-) True XLOC_026446
TCONS_00053050 lncRNA downstream 409078 30694877 ~ 30696290 (-) True XLOC_026439
TCONS_00051527 lncRNA downstream 429340 30670505 ~ 30676028 (-) True XLOC_026438
TCONS_00053053 lncRNA upstream 65490 31174133 ~ 31177209 (-) True XLOC_026453
TCONS_00052472 lncRNA upstream 402827 31511470 ~ 31600282 (-) False XLOC_026457
TCONS_00052473 lncRNA upstream 403131 31511774 ~ 31600282 (-) False XLOC_026457
TCONS_00052474 lncRNA upstream 408047 31516690 ~ 31517317 (-) True XLOC_026457
TCONS_00053054 lncRNA upstream 541610 31650253 ~ 31650711 (-) True XLOC_026460
TCONS_00051547 mRNA downstream 18598 31080700 ~ 31086770 (-) True XLOC_026449
TCONS_00051544 mRNA downstream 26122 31069276 ~ 31079246 (-) False XLOC_026448
TCONS_00051543 mRNA downstream 26182 31066787 ~ 31079186 (-) False XLOC_026448
TCONS_00051545 mRNA downstream 27020 31069331 ~ 31078348 (-) True XLOC_026448
TCONS_00051542 mRNA downstream 36900 31063917 ~ 31068468 (-) False XLOC_026448
TCONS_00051551 mRNA upstream 9383 31118026 ~ 31158437 (-) False XLOC_026452
TCONS_00051552 mRNA upstream 9387 31118030 ~ 31158382 (-) True XLOC_026452
TCONS_00051553 mRNA upstream 92899 31201542 ~ 31226841 (-) False XLOC_026454
TCONS_00051554 mRNA upstream 101639 31210282 ~ 31218226 (-) False XLOC_026454
TCONS_00051555 mRNA upstream 104079 31212722 ~ 31218274 (-) True XLOC_026454
TCONS_00051529 other downstream 304710 30800541 ~ 30800658 (-) True XLOC_026441
TCONS_00051520 other downstream 617274 30454353 ~ 30488094 (-) False XLOC_026436
TCONS_00051482 other downstream 1235244 29868899 ~ 29870124 (-) True XLOC_026416
TCONS_00051481 other downstream 1236636 29868635 ~ 29868732 (-) True XLOC_026418
TCONS_00051479 other downstream 1237828 29867404 ~ 29867540 (-) True XLOC_026417
TCONS_00051585 other upstream 1077491 32186134 ~ 32187385 (-) False XLOC_026474
TCONS_00051635 other upstream 1864331 32972974 ~ 32973534 (-) True XLOC_026495
TCONS_00051656 other upstream 2315549 33424192 ~ 33424328 (-) True XLOC_026505
TCONS_00051678 other upstream 2840026 33948669 ~ 33948788 (-) True XLOC_026513
TCONS_00051702 other upstream 2914522 34023165 ~ 34023613 (-) True XLOC_026529

Expression Profile

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