RNA id: TCONS_00051828


Basic Information

Item Value
RNA id TCONS_00051828
length 459
lncRNA type retained_intron
GC content 0.46
exon number 3
gene id XLOC_026603
representative True

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 36427988 ~ 36440705 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TAAGGAGGCGGTGCCGAGCGTAATTGTTTACGTGTGATCGCCCGACCATCCAGTCAGTCAGACTAAATAGCGCAGTGCCCTTGTAACATTTTACCTGCATAATTTGGCCAGCTTGACTGAATTGTGATGCTCGGAGCAGAGCGATCTACTCTGTCTGAAGTAGCCAAGATGACCGCGGCGAGTCAAGCAGAGCGGACCGTGCTGGAGGAAGAATTCAACTGGCTGCTGAAGGAAGAGGTGCATGCGGTGCTGAAACAGCTGCAGGACATTTTAAAGGAGGCATCAAGGCGTTTTTCCATGCCGTCACCGGGTCTGGAGGGACAGCTGAAGCAAGAAAACTTCATTCTAGGCAGCTCAACGTAATATATATGCATTCAGCCACTCTACTTggacctttttttgtttttttgcatgcataagaaaaataaaaatgttgttgtaAATCTTTTGGAAATCAAA

Function

GO:

id name namespace
GO:0007035 vacuolar acidification biological_process
GO:0032502 developmental process biological_process
GO:0043291 RAVE complex cellular_component
GO:0042995 cell projection cellular_component
GO:0030424 axon cellular_component
GO:0030425 dendrite cellular_component
GO:0045202 synapse cellular_component
GO:0005634 nucleus cellular_component
GO:0005635 nuclear envelope cellular_component
GO:0031410 cytoplasmic vesicle cellular_component
GO:0008021 synaptic vesicle cellular_component
GO:0043204 perikaryon cellular_component
GO:0030054 cell junction cellular_component
GO:0003674 molecular_function molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-7582 Predicted to be located in several cellular components, including nuclear envelope; perikaryon; and synaptic vesicle. Predicted to be part of RAVE complex. Is expressed in nervous system. Human ortholog(s) of this gene implicated in Kohlschutter-Tonz syndrome. Orthologous to human ROGDI (rogdi atypical leucine zipper).

Ensembl:

ensembl_id ENSDART00000157950

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00051826 lncRNA downstream 974 36428956 ~ 36438526 (-) False XLOC_026603
TCONS_00051827 lncRNA downstream 1149 36430945 ~ 36438351 (-) False XLOC_026603
TCONS_00053070 lncRNA downstream 115875 36320239 ~ 36323625 (-) True XLOC_026600
TCONS_00051807 lncRNA downstream 324209 36093640 ~ 36115291 (-) True XLOC_026592
TCONS_00051804 lncRNA downstream 574879 35862376 ~ 35864621 (-) True XLOC_026591
TCONS_00051832 lncRNA upstream 10948 36451635 ~ 36457308 (-) True XLOC_026604
TCONS_00053071 lncRNA upstream 142413 36583100 ~ 36587136 (-) True XLOC_026606
TCONS_00052478 lncRNA upstream 169647 36610334 ~ 36611024 (-) True XLOC_026609
TCONS_00053072 lncRNA upstream 512938 36953625 ~ 36954088 (-) True XLOC_026617
TCONS_00053073 lncRNA upstream 528716 36969403 ~ 36972222 (-) True XLOC_026619
TCONS_00051823 mRNA downstream 19103 36401105 ~ 36420397 (-) False XLOC_026602
TCONS_00051824 mRNA downstream 19859 36409593 ~ 36419641 (-) True XLOC_026602
TCONS_00051822 mRNA downstream 74597 36332579 ~ 36364903 (-) True XLOC_026601
TCONS_00051821 mRNA downstream 166830 36262593 ~ 36272670 (-) True XLOC_026599
TCONS_00051820 mRNA downstream 179398 36248851 ~ 36260102 (-) True XLOC_026598
TCONS_00051829 mRNA upstream 619 36441306 ~ 36458165 (-) False XLOC_026604
TCONS_00051830 mRNA upstream 5895 36446582 ~ 36458165 (-) False XLOC_026604
TCONS_00051831 mRNA upstream 6842 36447529 ~ 36458143 (-) False XLOC_026604
TCONS_00051834 mRNA upstream 19103 36459790 ~ 36481986 (-) False XLOC_026605
TCONS_00051833 mRNA upstream 19103 36459790 ~ 36481986 (-) True XLOC_026605
TCONS_00051819 other downstream 192705 36241668 ~ 36246795 (-) True XLOC_026597
TCONS_00051818 other downstream 192778 36240312 ~ 36246722 (-) False XLOC_026597
TCONS_00051816 other downstream 200459 36234207 ~ 36239041 (-) False XLOC_026597
TCONS_00051795 other downstream 1491466 34947638 ~ 34948034 (-) True XLOC_026585
TCONS_00051794 other downstream 1625531 34805839 ~ 34813969 (-) True XLOC_026584
TCONS_00051846 other upstream 315346 36756033 ~ 36756149 (-) True XLOC_026612
TCONS_00051856 other upstream 527184 36967871 ~ 36967993 (-) True XLOC_026618
TCONS_00051859 other upstream 635011 37075698 ~ 37075813 (-) True XLOC_026621
TCONS_00051873 other upstream 1232961 37673648 ~ 37699951 (-) False XLOC_026627
TCONS_00051881 other upstream 1326598 37767285 ~ 37773800 (-) False XLOC_026629

Expression Profile

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