RNA id: TCONS_00046227


Basic Information

Item Value
RNA id TCONS_00046227
length 753
lncRNA type retained_intron
GC content 0.44
exon number 6
gene id XLOC_023379
representative True

Chromosome Information

Item Value
chromosome id NC_007135.7
NCBI id CM002908.2
chromosome length 42172926
location 17364745 ~ 17400472 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

atattttaaagtcaGCTGAAAACCAGCAACCATTGATTTCCATcataggaaaaaaacaaatagtgtggaagacaatggttacaggttttcaactttcttcaaagtatcttcttttgtgttccacagaagaaactcaaatgtATGAACTAAGTAAAAGTTGACAGATTTTTCAATCCCATCAACATGATTTTTGATTGTTCACCCTCAGCAAGCGTGTGGGTTCGAGTACACCTCCAAACTCCAGCGCATGTTCCAGGACATCGGCGTCAGTAAAGACTTGAACGAACAATTCAAAAAGCACCTTTCCAACTCTGAGCCTCTGGACTTGGATTTCAGCATCCAGGTTTTGAGCTCCGGCTCGTGGCCGTTCCAGCAGTCTTGCACATTCGCTTTACCATCTGAGTTGGAGCGCAGTTACCAAAGATTTACAGCTTTTTATGGAAGCAGACACAGCGGACGCAAGTTAACATGGCTTTACCATCTATCCAAAGGAGAGCTGGTCACCAACTGCTTCAAGAACAGATACACTCTGCAGGCCTCCACCTTCCAGATGGCCATCCTGCTGCAGTTCAACACCGAGAACTGCTACTCCGTCCAGCAGCTCGCCGACAGCACACAGATCAAAACCGATATTTTAGTTCAGGTCTTGCAAATCCTGTTGAAATCAAAGTTGCTAGTCTTGGAGGACGAGAATGCAAACATTGACGAAATGGATTTCAAGCCTGATACATTAATAAAACTGTTCTTGGGCTA

Function

GO:

id name namespace
GO:0038061 NIK/NF-kappaB signaling biological_process
GO:0016567 protein ubiquitination biological_process
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process biological_process
GO:0006511 ubiquitin-dependent protein catabolic process biological_process
GO:0030593 neutrophil chemotaxis biological_process
GO:0031146 SCF-dependent proteasomal ubiquitin-dependent protein catabolic process biological_process
GO:0019005 SCF ubiquitin ligase complex cellular_component
GO:0031461 cullin-RING ubiquitin ligase complex cellular_component
GO:0004842 ubiquitin-protein transferase activity molecular_function
GO:0031625 ubiquitin protein ligase binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040426-2887 Predicted to enable ubiquitin protein ligase binding activity and ubiquitin-protein transferase activity. Predicted to be involved in SCF-dependent proteasomal ubiquitin-dependent protein catabolic process and protein ubiquitination. Predicted to act upstream of or within NIK/NF-kappaB signaling. Predicted to be part of SCF ubiquitin ligase complex. Orthologous to human CUL1 (cullin 1).

Ensembl:

ensembl_id ENSDART00000141679

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00047171 lncRNA downstream 130109 17233526 ~ 17236200 (-) True XLOC_023378
TCONS_00047170 lncRNA downstream 239323 17124410 ~ 17126986 (-) True XLOC_023376
TCONS_00046850 lncRNA downstream 1143523 16204788 ~ 16222786 (-) True XLOC_023367
TCONS_00047169 lncRNA downstream 1218791 16146503 ~ 16147518 (-) True XLOC_023366
TCONS_00046849 lncRNA downstream 1616895 15745070 ~ 15749414 (-) True XLOC_023364
TCONS_00047172 lncRNA upstream 34900 17403470 ~ 17406396 (-) False XLOC_023380
TCONS_00046228 lncRNA upstream 34900 17403470 ~ 17406483 (-) True XLOC_023380
TCONS_00046230 lncRNA upstream 40738 17409308 ~ 17413929 (-) False XLOC_023381
TCONS_00046229 lncRNA upstream 40738 17409308 ~ 17413936 (-) False XLOC_023381
TCONS_00047173 lncRNA upstream 40738 17409308 ~ 17413946 (-) True XLOC_023381
TCONS_00046222 mRNA downstream 299025 17048078 ~ 17067284 (-) True XLOC_023375
TCONS_00046220 mRNA downstream 317039 17040211 ~ 17049270 (-) False XLOC_023375
TCONS_00046221 mRNA downstream 318391 17041823 ~ 17047918 (-) False XLOC_023375
TCONS_00046219 mRNA downstream 326671 17031129 ~ 17039638 (-) True XLOC_023374
TCONS_00046218 mRNA downstream 336935 17027310 ~ 17029374 (-) True XLOC_023373
TCONS_00046232 mRNA upstream 48580 17417150 ~ 17892385 (-) False XLOC_023382
TCONS_00046231 mRNA upstream 48580 17417150 ~ 17892385 (-) False XLOC_023382
TCONS_00046233 mRNA upstream 52233 17420803 ~ 17444067 (-) False XLOC_023382
TCONS_00046234 mRNA upstream 52859 17421429 ~ 17892325 (-) False XLOC_023382
TCONS_00046235 mRNA upstream 53152 17421722 ~ 18179535 (-) True XLOC_023382
TCONS_00046223 other downstream 227195 17136749 ~ 17139114 (-) True XLOC_023377
TCONS_00046216 other downstream 386581 16971104 ~ 16979728 (-) True XLOC_023371
TCONS_00046210 other downstream 466185 16896808 ~ 16900124 (-) False XLOC_023369
TCONS_00046204 other downstream 811326 16554869 ~ 16554983 (-) True XLOC_023368
TCONS_00046203 other downstream 1291194 16074089 ~ 16075115 (-) True XLOC_023365
TCONS_00046236 other upstream 178183 17546753 ~ 17546869 (-) True XLOC_023383
TCONS_00046242 other upstream 1084602 18453172 ~ 18456584 (-) False XLOC_023386
TCONS_00046245 other upstream 1101596 18470166 ~ 18485491 (-) False XLOC_023387
TCONS_00046247 other upstream 1105211 18473781 ~ 18485411 (-) True XLOC_023387
TCONS_00046255 other upstream 1191860 18560430 ~ 18598641 (-) True XLOC_023389

Expression Profile

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