RNA id: TCONS_00035187


Basic Information

Item Value
RNA id TCONS_00035187
length 539
lncRNA type retained_intron
GC content 0.53
exon number 6
gene id XLOC_017803
representative True

Chromosome Information

Item Value
chromosome id NC_007131.7
NCBI id CM002904.2
chromosome length 55201332
location 851583 ~ 894374 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TATCAGCCGTGGCTGAACCTGAAGGTGCCATCCAAAGTTGATGCCAGCATATCTGAGGTGTTGGAGTTAGTCCTAGAGAACTTTGTGTATCCGTGGTACAGGGATATTACAGATGACGAGGCGTGTGTGGATGAGCTGAGGCAAACCATCCGCTTCTTTGCTGCAGTCCTGGCTCACCGAGCACAAAGAGTGGACGTTCCTTCTGTGGTGATGGACAAGATGATGAAAGCGGCTATGAAGCACATTGAGATCATCGCCAAAGCGCAGCAGAAAGtgagGAACACAGATGGTCTCGAGCAGGCCGCGCTGGCCGAGTACGGGGCCGATCTGCACGTGGCCCTGCGGAGCCGCAAAGATGAGCTGCTGTACTTGCGGAAACTCACAGAGCTGCTGTTTCCATACGTCATGCCTCCCAAAGCCACAGACTGCAGATCTTTGGCTCTGCTGATTCGGGAGGTCATGACCGGCTCTGTTTTTCTCCCAATAATGGACTTTGTGGCTGATCCTGTGAGTGTAGCGACTCTCCTTAAACATGTTTG

Function

GO:

id name namespace
GO:0006914 autophagy biological_process
GO:0097352 autophagosome maturation biological_process
GO:0021680 cerebellar Purkinje cell layer development biological_process
GO:0030902 hindbrain development biological_process
GO:0005764 lysosome cellular_component
GO:0005765 lysosomal membrane cellular_component
GO:0005768 endosome cellular_component
GO:0005770 late endosome cellular_component
GO:0042995 cell projection cellular_component
GO:0030425 dendrite cellular_component
GO:0031902 late endosome membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0035091 phosphatidylinositol binding molecular_function
GO:0080025 phosphatidylinositol-3,5-bisphosphate binding molecular_function

KEGG:

id description
ko04990 Domain-containing proteins not elsewhere classified

ZFIN:

id description
ZDB-GENE-040724-144 Predicted to enable phosphatidylinositol-3,5-bisphosphate binding activity. Involved in autophagosome maturation. Acts upstream of or within autophagy and cerebellar Purkinje cell layer development. Predicted to be located in late endosome and lysosome. Is expressed in central nervous system. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 20. Orthologous to human SNX14 (sorting nexin 14).

Ensembl:

ensembl_id ENSDART00000141333

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00036780 lncRNA downstream 348375 530511 ~ 534076 (-) False XLOC_017799
TCONS_00036781 lncRNA downstream 348387 531290 ~ 534064 (-) False XLOC_017799
TCONS_00036782 lncRNA downstream 348409 531502 ~ 534042 (-) True XLOC_017799
TCONS_00035176 lncRNA downstream 450155 430001 ~ 432296 (-) True XLOC_017796
TCONS_00036779 lncRNA downstream 470532 408561 ~ 411919 (-) True XLOC_017795
TCONS_00035196 lncRNA upstream 312719 1198079 ~ 1198709 (-) True XLOC_017809
TCONS_00035212 lncRNA upstream 568790 1454150 ~ 1463535 (-) True XLOC_017815
TCONS_00036440 lncRNA upstream 750272 1635632 ~ 1725104 (-) True XLOC_017816
TCONS_00036441 lncRNA upstream 859865 1745225 ~ 1763478 (-) True XLOC_017817
TCONS_00036783 lncRNA upstream 1173578 2058938 ~ 2065432 (-) False XLOC_017819
TCONS_00035186 mRNA downstream 7644 861819 ~ 874807 (-) False XLOC_017803
TCONS_00035183 mRNA downstream 77206 803108 ~ 805245 (-) True XLOC_017802
TCONS_00035182 mRNA downstream 90663 778608 ~ 791788 (-) True XLOC_017801
TCONS_00035180 mRNA downstream 240940 616114 ~ 641511 (-) False XLOC_017800
TCONS_00035181 mRNA downstream 251814 616753 ~ 630637 (-) True XLOC_017800
TCONS_00035188 mRNA upstream 17052 902412 ~ 909953 (-) False XLOC_017804
TCONS_00035189 mRNA upstream 17052 902412 ~ 915234 (-) True XLOC_017804
TCONS_00035190 mRNA upstream 58519 943879 ~ 1120056 (-) True XLOC_017805
TCONS_00035191 mRNA upstream 246732 1132092 ~ 1151265 (-) False XLOC_017806
TCONS_00035192 mRNA upstream 247219 1132579 ~ 1141722 (-) True XLOC_017806
TCONS_00035199 other upstream 344428 1229788 ~ 1239603 (-) True XLOC_017810
TCONS_00035230 other upstream 1804188 2689548 ~ 2708120 (-) False XLOC_017830
TCONS_00035232 other upstream 1830589 2715949 ~ 2725519 (-) False XLOC_017831
TCONS_00035252 other upstream 2437244 3322604 ~ 3322820 (-) True XLOC_017842
TCONS_00035253 other upstream 2438206 3323566 ~ 3323782 (-) True XLOC_017843

Expression Profile

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