RNA id: TCONS_00018163


Basic Information

Item Value
RNA id TCONS_00018163
length 3829
RNA type mRNA
GC content 0.45
exon number 22
gene id XLOC_009242
representative False

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 25100726 ~ 25153403 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CTCCAGCGCGACAGATGGCGCTAATGAATCAAATTTCTCCTGCGCGTCGACACCGGTAAAGAAGTATTCGCGTCAGCACAGGGAAATAAACCAGACAGTTTACTGTTCACAATGATGGAGGATGAAGAATTAGAATTTGTGGAAGATTTAGAGGCGATATTACACCTTACCCCAGAAGTGCAATTGGCGATTGAGCAGGTTTTTCCCAGTCAAGACCCATTAGATCGAGCTGATTTTAATGCTGTTGAATACATTAATACCTTGTTTCCAACAGAGCAGTCCCTGGCAAATATAGATGAAGTGGTGAATAACATTCGACTTAAAATCAGAAAGTTGGATGACAATATCAGAACAGTGGTGAGGGGACAGACGAATGTGGGGCAAGATGGCAGACAAGCTTTGGAGGAGGCCCAGAAAGCCATTCAGCAACTCTTTGGCAaaatcaaagacatcaaagacaaAGCAGAGAAATCGGAGCAAATGGTTAAGGAGATCACACGGGACATCAAGCAGCTGGATCATGCCAAGCGTCACCTGACGACTTCTATAACCACCCTCAATCACCTGCACATGCTGGCTGGTGGCGTTGACTCTCTTGAAGCTATGACACGAAAACGGCAGTATGGAGAGGTGGCCAATCTCCTTCAGGGTGTAGTCAATGTGCTGGAGCACTTCCAAAAGTACATGGGCATCCCGCAGATACGGCAGCTCTCAGAGAGAGTAAAAGCTGCACAGAGTGAACTTGGTACACAGATACTGGCTGACTTTGAGGAGACGTTTCCTGCCCAGGGGTCAAAGAAATCTGGAGGTCCCAGCATTGTTCTCAGAGATGCCTGTTTGGTGGCAAATGTCCTGGATCCTCGGATTAAGCAAGAGATCATCAAAAAGTTCATCCGGCAGCACCTTTCAGAATACATGGTGCTTTTTCAAGAGAATCAAGATGTGGCATGGCTGGACAAGATTGACCGGCGATATGCATGGATCAAGCGTCAACTGGTGGATTATGAGGAGAAATATGGACGAATGTTTCCTGAagagtggtgcatgactgaacGCATCGCTGTTGAGTTCTGTCACATCACCAGAACTGAGCTGACCAAGCTGATGAGAACACGTGCCAGAGAGATTGAGGTCAAGCTTTTGCTATTCGCTATTCAGAGGACTACCAATTTTGAGGGACTGCTGGCTAAACGCTTCTCAGGCTGCACCTTGAACGACGGGCCCGGGCAGAAAAAGCCAGAGACTCCTTTAGAACCAACAAACCCCTTTCTGGAAGATGAGTCTGGAGAGGACAATGTATCAGAAAAGGATGAAGATTTGGACAGACCAAAGAAGCCCAAGGCTCCAGACAACCCTTTCCACGGCATTGTGTCCAAGTGTTTTGAGCCTCACCTCTACGTTTACATCGAGTCGCAGGATAAAAATCTTGGAGAGCTGATTGACCGTTTTGTTGCTGACTTCCGGGCGCAGGGTCCCCCTAAATCAGGTACAGATGAGGGTGGTGCTGTGCTGCCCAGCTGTGCTGATCTCTTTGTGTACTACAAGAAGTGTATGGTGCAGTGCTCTCAACTGAGCACCGGAGAACCCATGATTGCTCTGACCACCATCTTCCAGAAGTATCTGCGCGAGTACGCCTGGAAGATCCTCTCCGGAAACCTACCCAAGACCAGCACCAATAGTGGTGGTCTGACCATCAGCAGCCTGTTGAAGGAAAAAGAGGGATCAGAAGTAGCCAAGTTCACCGTGGAAGAGCTGTGTCTGATTTGTAGTATCCTCAGCACGGCTGAATACTGTCTGGCTACCACACTACAGCTGGAGGAGAAGCTCAAGGAGAAGGTGGACAAGTCTCTAATGGAGAGAATCAACCTTTCTGGGGAGATGGACACATTTAGCACGGTTATTTCAAACAGTATCCAGCTCTTGGTTCAGGATCTGGATGCTGCATGTGATCCAGCCCTCACTGCTATGAGCAAGATGCCGTGGCAGAGCGTGGAACATGTGGGTGACCAAAGCCCATATGTGACCTCTGTAATCATGCACATCAAACAGAACGTGCCCATCATCAGAGACAACCTGGCCTCCACCCGCAAATACTTCACCCAGTTCTGCATTAAATTCACCAACTCCTTCATTCCAAAGTTCATCAATCACCTCTTCAGGTGTAAGCCAATCAGCATGGTTGGAGCCGAGCAGCTACTCCTAGACACTCATTCGCTGAAGACGGTTCTTCTAGACCTCCCTTCTATTGGCTCTCAGGTGGTCCGAAAAGCTCCTGCCAGCTACACCAAAATAGTGGTGAAAGGAATGACTCGGGCTGAGATGATTCTCAAGGTGGTCATGGCCCCTCACGAGCCATCTGTGGTGTTTGTGGACAACTACATTAAACTGCTTGCCGACAGCAATCCTGAAACCTTCCAGAAGATTCTAGATATGAAGGGTCTGAAACGAAGTGAGCAGAGCACCATGCTGGAGCTCTTCAGACAGCGGCTGCCGACTCCACCGTCAGGACCGGATGGAGGCCCATCACTGTCCTTCAGCGCACCCACTCCAGAACAAGAGTCCTCCCGTATCCGCAAACTAGAGAAGCTTATCAAAAAGAGGATTCAATAACTCAGTTCATTAATGTGAGCACTTTTATTAGTGCACACTAATCTCCATTATCAGCATGGCCTGAAAACATGTCGCCACTCCAGTTTTATCCTGCTGAAAATGGAGTGTAAATACTACTGCTGTGTCCTCTGTATGTATTTATGTTCTTTTACAAATCATGGTTTTGAGGCTTTCATGAATTGCTTTACTATAAGCCTTATGATTCAAGTCCTTTCCTGAACCTCAACACATTACTGGCATGAATGAGTCATTTTGCCATCACCCCCCTTTTTTTCTTGCTCCACTTTACAACACTAATACCCACAGTGTCATTTACTTTGCACATTTTTCTGATTTATGCAATGGGCAATGTGGCCTAGAAAAGTAACCTGCTGCTATTCTGGCACAAAATGTTCTGGCTTGGGATTTCCAACATCAAAATGATTTAAAGCCAAAGTTTTTCTAATTGTCCCCTCACTATAACAGTAAACGGCTGTGTGGAGCTTGGGCCTGTTGGGTAGCATATTTCAGACACTCCAAAACAAAGGAGCTTGAGATGTCCTGCTGAAACGACAAACCAGTTGTTTtggcttttaaaatgttttcccaGGTTGGGGCGAAAAGAAAGAAACACTCACACTGTAGATGTTTTGTTCCTGCAGGAGTCGTAAGGAAGAAATATCCACCCCTCATGCTTCCCATGATAGAAATATTTTCTTTGCGAACAATAACTGAAGTTCATGGGAGATTATCGGAACGCAGAAATATTAGTGTTCATGCTGTGGATCTATAATTTTCATTTGCGTCATCTGCTGTTCACTTGTGTAAAGAAGTATTTGTTTGTGTTCATCGTTTTGACATAACTTATTTTATAGTCCTTTTTAATAGGTCATTAAATGAACCGTGGAATGGATTTACTGTCATTTGGATCATTTAATCTATTATCGCACTCTTCTTTAGGATGGTTTCTTCTCTGTATATGGCTTTGGACTTGTTAAAAGAGCTCAACCGCAGTGCATATCAAAGCTAGATTTGTGCAATGAATGTATGATTTATGTGCTGGAGTGGCTACTGTGATGTATGTGAGTTTATTGCAATATTGTTTGCAATGATTTCTACTCTGGTTTATACTGTTGACGGCTTCTAATCAAAACATTCCTGCCTTCTGTGAATATGACGACAGCTTTTTAAGAATAACTGCAGAGATACATTCTGCTCAGTAAAAATCTGTTGACTATGG

Function

GO:

id name namespace
GO:0042147 retrograde transport, endosome to Golgi biological_process
GO:0000938 GARP complex cellular_component
GO:0003674 molecular_function molecular_function

KEGG:

id description
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-041114-199 Predicted to be involved in retrograde transport, endosome to Golgi. Predicted to be located in Golgi apparatus and endosome membrane. Predicted to be part of GARP complex. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 2E. Orthologous to human VPS53 (VPS53 subunit of GARP complex).

Ensembl:

ensembl_id ENSDART00000122184

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00018824 lncRNA downstream 126617 24968092 ~ 24974112 (-) True XLOC_009236
TCONS_00019159 lncRNA downstream 173636 24901551 ~ 24927093 (-) False XLOC_009234
TCONS_00018168 lncRNA upstream 61725 25215128 ~ 25229469 (-) False XLOC_009244
TCONS_00019163 lncRNA upstream 545409 25698812 ~ 25760624 (-) False XLOC_009254
TCONS_00019164 lncRNA upstream 545409 25698812 ~ 25876114 (-) False XLOC_009254
TCONS_00019165 lncRNA upstream 565341 25718744 ~ 25760609 (-) False XLOC_009254
TCONS_00018193 lncRNA upstream 565341 25718744 ~ 25760634 (-) False XLOC_009254
TCONS_00018161 mRNA downstream 1050 25096032 ~ 25099679 (-) True XLOC_009241
TCONS_00018160 mRNA downstream 1496 25093291 ~ 25099233 (-) False XLOC_009241
TCONS_00018158 mRNA downstream 6703 25084940 ~ 25094026 (-) False XLOC_009240
TCONS_00018159 mRNA downstream 7049 25087205 ~ 25093680 (-) True XLOC_009240
TCONS_00018156 mRNA downstream 17529 25080041 ~ 25083200 (-) True XLOC_009239
TCONS_00018165 mRNA upstream 19268 25172671 ~ 25198107 (-) False XLOC_009243
TCONS_00018166 mRNA upstream 44024 25197427 ~ 25209308 (-) True XLOC_009243
TCONS_00018167 mRNA upstream 60768 25214171 ~ 25269028 (-) False XLOC_009244
TCONS_00018170 mRNA upstream 89256 25242659 ~ 25269028 (-) True XLOC_009244
TCONS_00018171 mRNA upstream 119782 25273185 ~ 25319663 (-) False XLOC_009245
TCONS_00018157 other downstream 7012 25084821 ~ 25093717 (-) False XLOC_009240
TCONS_00018151 other downstream 192250 24908394 ~ 24908479 (-) True XLOC_009234
TCONS_00018142 other downstream 941662 24158953 ~ 24159067 (-) True XLOC_009227
TCONS_00018102 other downstream 2145597 22955017 ~ 22955132 (-) True XLOC_009204
TCONS_00018101 other downstream 2379848 22720765 ~ 22720881 (-) True XLOC_009203
TCONS_00018169 other upstream 85086 25238489 ~ 25268641 (-) False XLOC_009244
TCONS_00018173 other upstream 125442 25278845 ~ 25284045 (-) True XLOC_009245
TCONS_00018187 other upstream 424785 25578188 ~ 25579500 (-) False XLOC_009252
TCONS_00018188 other upstream 425072 25578475 ~ 25584862 (-) True XLOC_009252
TCONS_00018197 other upstream 841577 25994980 ~ 25995095 (-) True XLOC_009256

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000072_02326222_02344508.mRNA True 3405 mRNA 0.47 19 CI01000072 2326222 ~ 2345441 (+)