RNA id: TCONS_00040043


Basic Information

Item Value
RNA id TCONS_00040043
length 1464
RNA type mRNA
GC content 0.44
exon number 6
gene id XLOC_020084
representative False

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 5123479 ~ 5130024 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATgactaaatattcatttattttctgcttaTCCATACATTTatgtgttctggtgtttttaAATACTGCACAGAACCATGGAGCCTGGCAACACAAGGTTAAGTGGGAAACTAATGGGCAGGTTTACAGTTTACTGAGCGCCAGCTCTCAGTATCATGCACCTGCTTCTGGAAAACAACATGCAAGATTCTTACTGAGGAGGCAGATTATACCAAGTTTCACAGGCAGGATTTTCATGGGACAATTTGCCAAAACAAGGATGCACACAGCTGGGCATGTGGTGCGTTCAAGCCCTGTGCCAGGCCACATTGGTTTGAATGCAAAACACATGATCTCAGGCCACATCAGGAATAATAATCAGTTGCCTTTGCATGCAAAAAAAGTTGCTTTTTCTTCAGATGAAACTCTGCGCACCCAGACCTGGCCTTATAGGACATCACCAACTGGAACAACTACACATGGACCAGTAAAAAATTCAGAGATCTCAAGGGCACCAAAACAACATAAGATTACCAGCCAACCAGTAGCAAAACAACCATCACCAGCTACCGGAAAACCACCCACTCCTGAGGAGAAACAGCATGCTAAACCTCAACCTATTAGTAATGCTACTAATAAATCTAAACTTTCCCCAAGTTTAGATGCACCTTCAGCATCTGGTAATGTCAGGAATGTTAGAAATCCTCTTGTCCAAGTTGAAGCACGAGGAGGTGAGAGTATGATTGATGATGAACCAACGAATCATCAAGCAAACAGAAACTCTTTCTATAATCTGCTCCCGTATGGGAATACCAACAGATCTCCTCAGAGAGAAACAGGTCATGGTACAAGATATTTCCTTAATGGACTGCCTGATCTCATTCCTGATCCATACTATATCCAAGCAGCATCTTACATCCAAAGAGTGCAGATGTACACATTAAGATGTGCCGCAGAGGAGAACTGCCTTTCCAGTTCAGCGTACAGCTCGAGTGTGAGGGACCTTGATTACAGAGTGCTCCTCCGATTTCCTCAGAGAGTCAAAAATCAAGGCACAGCAGATTTTCTCCCTGTGAAACCACATTATGATTGGGAATGGCACAGCTGCCACCAGCATTATCACAGCATGGATGCCTTCAGCAATTATGACCTTCTGGACGCTGCTACGGGCAGAAAAGTGGCTGAGGGTCATAAAGCCAGTTTCTGTCTGGAAGACACCAGCTGTGATCCAGGAGTGAGGAGAAGATACGCCTGCACAGCTCACACACAGGGATTGGGCCCTGGTTGCTACGACACCTACCATGCTAACATCGACTGCCAATGGATTGATATAACAGATGTTTCTCTTGGAGATTATATTCTGAAGGTAACGGTAAACCCAGGTTTTCAAGTGCAGGAGTCAGACTTCTCCAATAACGTTGTTAGATGTGATATCCGATACACAGGATTGTACGTCCAAACAAACAACTGTAGGATCACCGGGtga

Function

GO:

id name namespace
GO:0030199 collagen fibril organization biological_process
GO:0055114 oxidation-reduction process biological_process
GO:0018057 peptidyl-lysine oxidation biological_process
GO:0005576 extracellular region cellular_component
GO:0005615 extracellular space cellular_component
GO:0005507 copper ion binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0016491 oxidoreductase activity molecular_function
GO:0016641 oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor molecular_function
GO:0004720 protein-lysine 6-oxidase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-070705-186 Predicted to enable protein-lysine 6-oxidase activity. Predicted to be involved in collagen fibril organization and peptidyl-lysine oxidation. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Is expressed in notochord.

Ensembl:

ensembl_id ENSDART00000081910

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00041865 lncRNA upstream 923 5118313 ~ 5122556 (+) False XLOC_020083
TCONS_00042025 lncRNA upstream 923 5118378 ~ 5122556 (+) False XLOC_020083
TCONS_00040040 lncRNA upstream 1681 5119733 ~ 5121798 (+) False XLOC_020083
TCONS_00040038 lncRNA upstream 3531 5118378 ~ 5119948 (+) False XLOC_020083
TCONS_00042024 lncRNA upstream 19662 5102773 ~ 5103817 (+) False XLOC_020082
TCONS_00042026 lncRNA downstream 166584 5296092 ~ 5297076 (+) True XLOC_020088
TCONS_00041866 lncRNA downstream 508377 5637885 ~ 5640683 (+) True XLOC_020095
TCONS_00042027 lncRNA downstream 677343 5806851 ~ 5825209 (+) True XLOC_020100
TCONS_00042028 lncRNA downstream 779186 5908694 ~ 5923242 (+) True XLOC_020104
TCONS_00042029 lncRNA downstream 792460 5921968 ~ 5939401 (+) True XLOC_020105
TCONS_00040036 mRNA upstream 922 5118361 ~ 5122557 (+) False XLOC_020083
TCONS_00040037 mRNA upstream 1407 5118370 ~ 5122072 (+) False XLOC_020083
TCONS_00040041 mRNA upstream 1444 5120033 ~ 5122035 (+) True XLOC_020083
TCONS_00040039 mRNA upstream 2019 5118406 ~ 5121460 (+) False XLOC_020083
TCONS_00040035 mRNA upstream 6855 5106751 ~ 5116624 (+) True XLOC_020082
TCONS_00040045 mRNA downstream 5685 5135193 ~ 5145469 (+) False XLOC_020085
TCONS_00040046 mRNA downstream 6376 5135884 ~ 5144708 (+) True XLOC_020085
TCONS_00040047 mRNA downstream 46747 5176255 ~ 5232099 (+) False XLOC_020086
TCONS_00040048 mRNA downstream 47185 5176693 ~ 5214851 (+) True XLOC_020086
TCONS_00040052 mRNA downstream 202167 5331675 ~ 5428243 (+) False XLOC_020091
TCONS_00040031 other upstream 445498 4677867 ~ 4677981 (+) True XLOC_020077
TCONS_00040022 other upstream 1362608 3760757 ~ 3760871 (+) True XLOC_020070
TCONS_00040021 other upstream 1735475 3384732 ~ 3388004 (+) True XLOC_020069
TCONS_00040020 other upstream 1747209 3375262 ~ 3376270 (+) True XLOC_020068
TCONS_00040015 other upstream 1890845 3231612 ~ 3232634 (+) True XLOC_020062
TCONS_00040049 other downstream 163705 5293213 ~ 5293301 (+) True XLOC_020087
TCONS_00040050 other downstream 170443 5299951 ~ 5300056 (+) True XLOC_020089
TCONS_00040051 other downstream 177977 5307485 ~ 5307574 (+) True XLOC_020090
TCONS_00040065 other downstream 681369 5810877 ~ 5812454 (+) True XLOC_020101
TCONS_00040079 other downstream 1160726 6290234 ~ 6290350 (+) True XLOC_020115

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000030_10977260_10979944.mRNA True 1524 mRNA 0.46 6 CI01000030 10977224 ~ 10979944 (-)