RNA id: TCONS_00012668


Basic Information

Item Value
RNA id TCONS_00012668
length 539
lncRNA type retained_intron
GC content 0.47
exon number 3
gene id XLOC_006543
representative True

Chromosome Information

Item Value
chromosome id NC_007124.7
NCBI id CM002897.2
chromosome length 52186027
location 17751866 ~ 18011208 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CGGTGGACGTGACGCACGCTAAAAGATGGGGACtatgaaataaacacaaacacatcgCTTTGTACGGTCTGTGAAAGAAGGGATTTGGATTAGTGGTTCTCTCCATCATGTCGGTGCTGGCGGACAGACTTCAGCCTCAGAGAGTGTGAGCTCCACTGAACTGCGGGGATGAACATGCCACTGCACCAGATCTCTGTCATCCCTCGTGATGTCACTTCCTCCCGGGTGTGCAGCAGCGGGAAGGCAAAGGAAAAGGACAAGCAGAATGAGAAGCCGCTTGGTCATTCAGCAAGCAGGTCCAGCAACATTTCAAAGGTATAAAAATCCATTTCCTTTTCCTCATCCACCGAGACGTGAGCATTGCGGGAGGTCTAAACCTGCTGTCTGCAAACACTTTCCTTTCTCTCTGACTTTATTCTGTTTGAGGAACGCACTTCAGACAGAAATATATTTATCTGCCTGATGCAAAGGAGATTGGAAGGACATTTTCTGTGACCTAGTAGCAAATAAAAAAGCAAGGCAgacagtaaaatataaat

Function

GO:

id name namespace
GO:0006955 immune response biological_process
GO:0016567 protein ubiquitination biological_process
GO:0000209 protein polyubiquitination biological_process
GO:0002495 antigen processing and presentation of peptide antigen via MHC class II biological_process
GO:0005764 lysosome cellular_component
GO:0031901 early endosome membrane cellular_component
GO:0031902 late endosome membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005737 cytoplasm cellular_component
GO:0046872 metal ion binding molecular_function
GO:0008270 zinc ion binding molecular_function
GO:0042287 MHC protein binding molecular_function
GO:0061630 ubiquitin protein ligase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-080204-8 Predicted to enable MHC protein binding activity and ubiquitin protein ligase activity. Acts upstream of or within protein ubiquitination. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in early endosome membrane; late endosome membrane; and lysosome. Is expressed in blastomere and brain. Orthologous to human MARCHF8 (membrane associated ring-CH-type finger 8).

Ensembl:

ensembl_id ENSDART00000144324

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00013775 lncRNA downstream 65237 17751872 ~ 17757280 (-) False XLOC_006543
TCONS_00013472 lncRNA downstream 128698 17690661 ~ 17693819 (-) True XLOC_006541
TCONS_00013471 lncRNA downstream 131853 17686484 ~ 17690664 (-) False XLOC_006541
TCONS_00013774 lncRNA downstream 291981 17521005 ~ 17530536 (-) True XLOC_006540
TCONS_00013773 lncRNA downstream 292112 17521005 ~ 17530405 (-) False XLOC_006540
TCONS_00012676 lncRNA upstream 156253 18167461 ~ 18174826 (-) True XLOC_006546
TCONS_00013474 lncRNA upstream 998964 19010172 ~ 19016833 (-) False XLOC_006556
TCONS_00013473 lncRNA upstream 998964 19010172 ~ 19016833 (-) True XLOC_006556
TCONS_00013475 lncRNA upstream 1264965 19276173 ~ 19277332 (-) True XLOC_006557
TCONS_00013476 lncRNA upstream 1327269 19338477 ~ 19339436 (-) True XLOC_006558
TCONS_00012661 mRNA downstream 93043 17714296 ~ 17729474 (-) False XLOC_006542
TCONS_00012662 mRNA downstream 99100 17714446 ~ 17723417 (-) True XLOC_006542
TCONS_00012660 mRNA downstream 357863 17365892 ~ 17464654 (-) True XLOC_006539
TCONS_00012659 mRNA downstream 358155 16922705 ~ 17464362 (-) False XLOC_006539
TCONS_00012657 mRNA downstream 1564669 16230556 ~ 16257848 (-) True XLOC_006535
TCONS_00012669 mRNA upstream 8501 18019709 ~ 18069421 (-) False XLOC_006544
TCONS_00012670 mRNA upstream 34750 18045958 ~ 18069421 (-) True XLOC_006544
TCONS_00012671 mRNA upstream 62003 18073211 ~ 18119696 (-) False XLOC_006545
TCONS_00012672 mRNA upstream 62405 18073613 ~ 18105278 (-) False XLOC_006545
TCONS_00012673 mRNA upstream 65643 18076851 ~ 18088229 (-) False XLOC_006545
TCONS_00012658 other downstream 1514634 16307767 ~ 16307883 (-) True XLOC_006537
TCONS_00012624 other downstream 3437979 14384421 ~ 14384538 (-) True XLOC_006518
TCONS_00012619 other downstream 4151980 13670440 ~ 13670537 (-) True XLOC_006513
TCONS_00012616 other downstream 4177955 13644445 ~ 13644562 (-) True XLOC_006511
TCONS_00012615 other downstream 4231947 13587296 ~ 13590570 (-) True XLOC_006510
TCONS_00012681 other upstream 633682 18644890 ~ 18645005 (-) True XLOC_006551
TCONS_00012682 other upstream 638284 18649492 ~ 18649682 (-) True XLOC_006552
TCONS_00012685 other upstream 704102 18715310 ~ 18715426 (-) True XLOC_006554
TCONS_00012693 other upstream 2206282 20217490 ~ 20222092 (-) False XLOC_006562
TCONS_00012694 other upstream 2209333 20220541 ~ 20222134 (-) True XLOC_006562

Expression Profile

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