RNA id: TCONS_00030589


Basic Information

Item Value
RNA id TCONS_00030589
length 1394
RNA type mRNA
GC content 0.45
exon number 6
gene id XLOC_015248
representative True

Chromosome Information

Item Value
chromosome id NC_007113.7
NCBI id CM002886.2
chromosome length 59640629
location 10160484 ~ 10169433 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATGAGAAAAAACGACGGACGGTATTTGATGATACACAGACATGGCAGCGTACGTGTGCACGAGATtttgtataaacaaatttaaagacTCAGTTAGATTTATTCCGCGACGGTATCGAGTTAAAACAAAATGGGCAGCAACGAGGCCCAAGTTTCCAGCCACTGAACTTGCTCTGCACAGCTTTGACAAAACATATAGTGTACAGTTCGGGGACTTGTGGCCCTCTATTCGTGTTGCCATGCTTTGTGAACAAAAATATGGAGCGCTAATAAACAGCTTCTCTTCAGCATCTGGGGAAATCACAGATTTAGAAGCTGAAGGGTGTAGAGACTTCATAACTATTGACTGTTCTAGAAATGAGGTCCATAAGTCCTCACAGGACCCCACAACCCCTCACAACGATTCGACAGATGTGGAATCAGCTCCTCTTCAAACCAGTATAACTCCTGATATTAAATGTCTTGTTTTCCCCCGAGGAGACATATCTAGATTTAAGCCAGCAAGACCTGACAGCAGTGGTATTTTGGGCTATTATCTTCTGGATGCTGCTTCCGTGCTGCCTGTACTAGCGCTGGACGTCCGGCCTGGACAAACAGTGCTGGATCTGTGTGCGGCTCCTGGAGGAAAAACCCTTGCTCTCCTGCAGGCACATTCAGTCAATCACTTGTGGGCAAATGACTTATCAGTTTCCCGCACTGGTCGATTGCGCAAGATTCTTCAGAGCTACGTGCCTAAAGAGTTTCTGGATGAAGAAAATATTCACATCACTTGCATTGATGGTCGGGAGTTAGGGATGAGAGAGGAGAAGAGCTTTGATAGAGTGCTGGTCGATGTTCCCTGCACAACAGACAGACACTCTGCAGTCGTGGAGGAGAACAATATATTTAAGAGGTCCAGGACCAAAGAGAGACAGAAGCTTCCACTCTTGCAAATCCAGCTTCTTGTGGCTGGCATCCAGGCTGCGCGGCAAGGAGGGCTGATAGTCTACTCTACGTGTTCCCTGTCCCAGCTGCAGAATGAGTGTGTGGTGCAACAGGCTATCAGTGTCGCTCAGGAAGAGTTGGGGATTACAGTGCAGGTTCAGGACCTCAGGTGGTTCACTCAGCGCTTTTCTGACACTTTCCACTTTGCGCCACAGTTAAGTGTCGGGGAACTGGTTTTACCACACCTGTGTGCCAACTTTGGACCAATTTATATGTGTAAATTACAAAGAATGAATTAGAGCAATTTTAAGATGAGCTCCGTTGTTGTTTTTTGCTGCCCCCTAGTGACCAGACATGGAACTTTCAAACGTTTTACTTctttaatgaagaaaaaatagCAAATGATGTGATCATTTTGTTAATTGTAAGTTATTATCAGTTATATATTAAACTTAGATATGATGCAAAAAA

Function

GO:

id name namespace
GO:0001510 RNA methylation biological_process
GO:0031167 rRNA methylation biological_process
GO:0032259 methylation biological_process
GO:0005762 mitochondrial large ribosomal subunit cellular_component
GO:0016740 transferase activity molecular_function
GO:0008168 methyltransferase activity molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko03009 Ribosome biogenesis
ko03029 Mitochondrial biogenesis

ZFIN:

id description
ZDB-GENE-041212-77 Predicted to enable methyltransferase activity. Predicted to be involved in rRNA methylation. Predicted to act upstream of or within methylation. Predicted to be part of mitochondrial large ribosomal subunit. Orthologous to human NSUN4 (NOP2/Sun RNA methyltransferase 4).

Ensembl:

ensembl_id ENSDART00000136018

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00030570 lncRNA upstream 321835 9838071 ~ 9838649 (+) True XLOC_015238
TCONS_00033482 lncRNA upstream 503437 9652353 ~ 9657047 (+) False XLOC_015236
TCONS_00033487 lncRNA downstream 115328 10284761 ~ 10285629 (+) True XLOC_015251
TCONS_00030592 lncRNA downstream 217046 10386479 ~ 10416272 (+) True XLOC_015252
TCONS_00033488 lncRNA downstream 394066 10563499 ~ 10564386 (+) True XLOC_015253
TCONS_00033489 lncRNA downstream 435080 10604513 ~ 10607329 (+) True XLOC_015254
TCONS_00030612 lncRNA downstream 885883 11055316 ~ 11063844 (+) True XLOC_015262
TCONS_00030587 mRNA upstream 8645 10147103 ~ 10151839 (+) False XLOC_015247
TCONS_00030586 mRNA upstream 9029 10147029 ~ 10151455 (+) False XLOC_015247
TCONS_00030588 mRNA upstream 10334 10147123 ~ 10150150 (+) True XLOC_015247
TCONS_00030585 mRNA upstream 18743 10134345 ~ 10141741 (+) True XLOC_015246
TCONS_00030584 mRNA upstream 31423 10127762 ~ 10129061 (+) True XLOC_015245
TCONS_00030591 mRNA downstream 111212 10280645 ~ 10284572 (+) True XLOC_015250
TCONS_00030593 mRNA downstream 472614 10642047 ~ 10687230 (+) True XLOC_015255
TCONS_00030595 mRNA downstream 540124 10709557 ~ 10760516 (+) False XLOC_015256
TCONS_00030594 mRNA downstream 540124 10709557 ~ 10760516 (+) False XLOC_015256
TCONS_00030596 mRNA downstream 540277 10709710 ~ 10735727 (+) True XLOC_015256
TCONS_00030577 other upstream 177531 9973881 ~ 9982953 (+) True XLOC_015242
TCONS_00030571 other upstream 284839 9875529 ~ 9875645 (+) True XLOC_015239
TCONS_00030569 other upstream 318620 9838032 ~ 9841864 (+) False XLOC_015238
TCONS_00030568 other upstream 326678 9831338 ~ 9833806 (+) False XLOC_015238
TCONS_00030545 other upstream 1971084 8189285 ~ 8189400 (+) True XLOC_015223
TCONS_00030590 other downstream 36568 10206001 ~ 10206118 (+) True XLOC_015249
TCONS_00030605 other downstream 837224 11006657 ~ 11006790 (+) True XLOC_015261
TCONS_00030617 other downstream 1074453 11243886 ~ 11244007 (+) True XLOC_015265
TCONS_00030621 other downstream 1587491 11756924 ~ 11764998 (+) False XLOC_015269
TCONS_00030632 other downstream 2207389 12376822 ~ 12378603 (+) False XLOC_015273

Expression Profile

Expression of TCONS_00030589 in the Zebrafish Sample from each Developmental Stage of PRJEB12982

Boxplot with 18 boxes. Box plot charts are typically used to display groups of statistical data. Each data point in the chart can have up to 5 values: minimum, lower quartile, median, upper quartile, and maximum.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 75.
End of interactive chart.
//

Expression of TCONS_00030589 in the Zebrafish Sample of PRJEB12982

Bar chart with 360 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 75.
End of interactive chart.

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000004_03505898_03508656.mRNA True 1396 mRNA 0.45 6 CI01000004 3505798 ~ 3508770 (-)