RNA id: TCONS_00073839


Basic Information

Item Value
RNA id TCONS_00073839
length 1073
lncRNA type retained_intron
GC content 0.49
exon number 5
gene id XLOC_037596
representative True

Chromosome Information

Item Value
chromosome id NC_007120.7
NCBI id CM002893.2
chromosome length 56459846
location 3898132 ~ 4018452 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AGGCGTCAGCGCGCCAGAGAGAGGCAGCAGAAGCTGCTGGCGGAGTTTGCCTCCAGGCAGAAGAGCTTCATGGAGACTGCCATGGATGTTGAGTCCCCTGAAGCAGATGCTGTAATGGACGTCAGCTCTGAGGAATCTTTGGACTCTGAGGTTCTCTATGACTGTGTGATCTGTGGTCAGAGTGGACCGTCCACTGAAGACAGACCCACAGGACTGGTGGTTCTGCTGCAGGCTTCGTCAGttttGGGTCACCGTTGTCGTAGTGACATGCCAAAGCGATTGCCCACCACAGACGAAGAACACATCTACCCTGAGGACACATGTGGAGCCACACACGATGTCAGGCTGTCCCTTATGCAACGCTATTTTAAAGATAGTTCCTGTCTGCAGTCTGTGTCTATTGGCTGGGACGGAGGGGTGTATGTGCAGACGTGTGGCCACACTCTGCATATAGACTGTCACAAGTCCTACATGGAGTCCTTACGGAATGATCAGGTTCTTCAGGGGATTTCTGTGGATAAAGGCGAGTTCACTTGTCCGCTTTGCCGCCAGTTTGCAAACAGTGTTTTACCTTGTCGTCCTGGACGAGGGATGGAAACCGGAGCCTGGCACGCACCCAGTACCAAGAGCATGTCTACACTGGTGAAAGAAGTAGAAGACCTCCAGGAGCAGCTGGGCATTTTCCCAGTAAGAGCCAGCATAAAGCAAAGAGATCCCATTCTGGTATTTATTAGAGTGCTCCCCATCCCCTCTTTTCTGTTCTTTCCATCTCATCCCTCCATTCTGATTCAGAGTAAGAGCTGGTGCCACACTGACCTTCATGTGATCTTTCATGCCCCATCTAACATTGCTGTGGTTTAACTTCTCATAATGCAAAGACTCAAGTTGGTGTCATATATGCATGTCAAACATTAGTGAGGTACTGAATTTTCTGTCACTGAAACTGAAAGACAAAAATAGCCATAAATAAGTGTATGAGCCAAATTGTGTCCCTTTCAGTTTGCTGGTTTTGCTCTCCCTGCACTGTGAGAAGCGGCTTTCACACTGGACAAACAAAGCACTGCGCTATGAAA

Function

GO:

id name namespace
GO:0071596 ubiquitin-dependent protein catabolic process via the N-end rule pathway biological_process
GO:0048592 eye morphogenesis biological_process
GO:0016567 protein ubiquitination biological_process
GO:0000151 ubiquitin ligase complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0016740 transferase activity molecular_function
GO:0046872 metal ion binding molecular_function
GO:0008270 zinc ion binding molecular_function
GO:0061630 ubiquitin protein ligase activity molecular_function

KEGG:

id description
ko04121 Ubiquitin system

ZFIN:

id description
ZDB-GENE-030131-1473 Predicted to enable ubiquitin protein ligase activity. Acts upstream of or within eye morphogenesis. Predicted to be part of ubiquitin ligase complex. Predicted to be active in cytoplasm. Is expressed in somite. Orthologous to human UBR3 (ubiquitin protein ligase E3 component n-recognin 3).

Ensembl:

ensembl_id ENSDART00000133189

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00075285 lncRNA downstream 536202 3358397 ~ 3395521 (-) False XLOC_037589
TCONS_00075286 lncRNA downstream 536469 3374635 ~ 3395254 (-) False XLOC_037589
TCONS_00075287 lncRNA downstream 536469 3394009 ~ 3395254 (-) True XLOC_037589
TCONS_00075284 lncRNA downstream 651272 3265568 ~ 3280451 (-) True XLOC_037588
TCONS_00073824 lncRNA downstream 777437 3153726 ~ 3154286 (-) True XLOC_037587
TCONS_00075288 lncRNA upstream 587649 4539475 ~ 4541821 (-) False XLOC_037600
TCONS_00075289 lncRNA upstream 914274 4866100 ~ 4867439 (-) True XLOC_037602
TCONS_00073852 lncRNA upstream 1091261 5043087 ~ 5044088 (-) False XLOC_037603
TCONS_00075290 lncRNA upstream 1093149 5044975 ~ 5045989 (-) True XLOC_037603
TCONS_00073869 lncRNA upstream 2462958 6414784 ~ 6502093 (-) True XLOC_037612
TCONS_00073834 mRNA downstream 65016 3699397 ~ 3866707 (-) False XLOC_037595
TCONS_00073835 mRNA downstream 97037 3749800 ~ 3834686 (-) True XLOC_037595
TCONS_00073833 mRNA downstream 259812 3666401 ~ 3671911 (-) True XLOC_037594
TCONS_00073832 mRNA downstream 278452 3621968 ~ 3653271 (-) True XLOC_037593
TCONS_00073831 mRNA downstream 278464 3621968 ~ 3653259 (-) False XLOC_037593
TCONS_00073840 mRNA upstream 72424 4024250 ~ 4075620 (-) True XLOC_037597
TCONS_00073842 mRNA upstream 526373 4478199 ~ 4506819 (-) False XLOC_037599
TCONS_00073843 mRNA upstream 526373 4478199 ~ 4511613 (-) True XLOC_037599
TCONS_00073844 mRNA upstream 586701 4538527 ~ 4606463 (-) False XLOC_037600
TCONS_00073845 mRNA upstream 613796 4565622 ~ 4598883 (-) True XLOC_037600
TCONS_00073830 other downstream 412012 3508318 ~ 3519711 (-) True XLOC_037592
TCONS_00073827 other downstream 435144 3490831 ~ 3496579 (-) True XLOC_037591
TCONS_00073809 other downstream 1594420 2330861 ~ 2337303 (-) True XLOC_037575
TCONS_00073808 other downstream 1654231 2226463 ~ 2277492 (-) False XLOC_037574
TCONS_00073798 other downstream 1972171 1938985 ~ 1959552 (-) False XLOC_037565
TCONS_00073841 other upstream 492092 4443918 ~ 4447104 (-) True XLOC_037598
TCONS_00073868 other upstream 2457331 6409157 ~ 6409271 (-) True XLOC_037613
TCONS_00073875 other upstream 2765851 6717677 ~ 6717801 (-) True XLOC_037618
TCONS_00073897 other upstream 3570609 7522435 ~ 7539023 (-) True XLOC_037632
TCONS_00073901 other upstream 3689934 7641760 ~ 7655301 (-) True XLOC_037633

Expression Profile

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