RNA id: TCONS_00003798


Basic Information

Item Value
RNA id TCONS_00003798
length 5761
RNA type mRNA
GC content 0.47
exon number 19
gene id XLOC_001935
representative False

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 9595575 ~ 9661896 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTTTTGCTATATTCGCTGACGCTCATGGGAGTGTACCTGCTCATGCTGAACATGTCGCGCTGTCAGGGAATGCGCTCTCAAATCTCTGGAAATTGCACACATGATTTAATGTGATGTCCGGTCGGAATAAAAAGACGGCAAAAATTCGGGAAAAAACAAGTTCGGCATTGCTGTGAATAAAAGACTGCGATGAAGAAACTGGTGTTGATGGCGAAGTGCAAATAAACTATGGACGGTTATGATGAGACGCTGTTTCGCCTGCGGTGTGTTTAAGGCACCAGGGCGTGGAAGTATGCGATCTACCTGAGCGAGATTGTTCCACCTGTAGGTCACAGGATGCCGGTGCAGGCAGCTCAATGGACCGAGTTTTTATCCTGCCCTATCTGCTATAATGAGTTTGATGCCTGCAGCCACAAGCCAATCAGCCTCGGCTGCTCGCACACCGTCTGCAAGACCTGCCTCCACAAACTGCACCGCAAGGCCTGTCCTTTTGACCAGACGGCTATCAGCACTGACATTGATGTGCTGCCTGTCAACTGTGCCCTCCTGCAGCTGGTGGGGGTGCCGGTTCCTGAGGGAGAGGTTGTGAGTGTGGGCAATGCTGAAGACACGAGACATTATGAAGTGTGCAGGATGTGTGTGGAGGAGCTGGCGCTGTACCTCAAACCAGTCAGTGGAGGAAAAGGTGTAATGTCGGCGAGTTCAAGTGCTCTCAGTCGGCCCATGCAGAGGAAGCTGGTGACGCTGGTGAACTGTCAGCTGGTGGAGGAAGAGGGCCGCGTGCGGGCGGTGCGGGCCTGCAGGTCTCTGGGTGAACGAACCGTCACTGAGCTCATCCTGCAGCACCAGAACCCACAGCAGCTCTCTGCAAACCTGTGGGCTGCAGTAAGGGCACGCGGGTGCCAGTTCCTTGGGCCTGCCATGCAGGAGGATGCTCTGAAGCTGGTGCTGTTGGCTCTGGAGGATGGATCTGCTCTGTCAAGGAAGGTTCTGGTTCTGTTTGTGGTGCAGAAACTGGAAGCGCGGTTTCCTCAGGCGTCAAAGACCAGCATAGGGCATGTGGTTCAGCTGCTGTATCGAGCCTCCTGCTTTAAGGTGACCAAACGTGATGAAGACTCGTCACTTATGCAGCTCAAAGAAGAGTTTCGCACGTATGAAGCCCTGCGGCGAGAACACGATGCTCAGATTGTTCACATCGCGATGGAAGCAGGACTGCGCATTTCACCTGAGCAGTGGTCATCTCTGCTGTACGGCGACCTCACGCACAAATCTCACATGCAGTCCATCATAGATAAGCTTCAGTCCCCAGAATCCTTTGCGAAGAGCGTGCAGGAGCTCACCATAATCCTGCAGAGAACAGGAGACCCAGCCAACCTGAACAGCCTCAGAGCTCCTCTCGAGCTGCTGGCCGGCATCGACCACAACCCTGatgcagCTGCTCCATCTTGGCCAGAGCTTGAGAGTGTGTTACTAGCCGTGAAGGTTGTTGTCCATGGGCTTGTGGAGTTCATCCAAAATTTTAGCAAAAAGAGCAATGAAAGCCCTCAGGCTCAACCCAACAGCAAGTACAAAACAAGTATGTGCAGGGACTTACGGCAGCAAGGCGGCTGCCCGAGAGGAGCCAGCTGTACATTTGCCCACACGCAAGAGGAGTTGGAGAAGCACAGAATGAGAAATAGGAAAGCTAGTGGGGCGGTGAGGCCGTTTCTGTCAGTTCCAGCAGTGATGGCCAAATCTTGCACCAAGGCAGGGTCAGAGGTAGGCCCCGGAGGGATAAAGAACCATGAGAAAGATGCCTCAGAGGACGTGTCTCCAACTCAGCTCATCCCTAGAGGAGGAGACCAGCAGGAGGACAAAATGCTGCTCAGTGGTGTTAACGGATTGCATGTGACCAGCCTAGAACAgaaTCTTGGCAGTCACAGCCAGTCTCCTTCCATATCTTCAGTGATGTCTACAGACAGACACGGGCATGTCCAGATGAGGGCTCACCCTGAGTACTGCTCTCAGGACCAGAGACCATATGAGCTGACACCCTACCCTCAGTCCACCATTCCTCCGAAGTCATGCAGTCCTCGCTTCCATCGTTCCAGCAATGTGCCCGAGTCCATGTTACCCCCTTCAGTGGGTCCTGTGTATCCTGATCAGCACCCCTCTGTTCCTGCTTTAGACAGACTAGGCCCAAGTCATTTTGGGCCGCCCTCTGCCTACTCCTCTCATGGCATGTACACCCCTGTTTACGACAGCCGGCGCGTGTGGAGGCCACCGCTGTATCCCAGGGATGGAGGAAGGAGTAACTCTCTCCCTCTAGAGGTTTTTCGATCCACTGTTTATCAGCCACCGCTCCGGGAGCGATACAACTCTCTAGACAGTCCATACTGCAGCACGACGGAGCAGAGAGCCACTATGCACAGGGACGCATACACTCGTGTTGATGAACTCTATCGACACAAACAGGAACACTGGGTACATCACCACAGCAATGTGAACCGGGCATCCCAGTCATCCCCAGTCTTCACTGTGGACATGTGTCCAGAGCATCCCGAGGGTGTAGGTGGTGGGCGTATGACTTGCAAGTGTCATGGTGGAGAAGAGAGTCTTGCCCACTACTCGCCCTGGTCGTGCAGCACCATCAGCCCATTTGAGTCAGAGCCCCATCATTTGCCAACCCACTCCTGTTCCAAACATCTAGAAGAGGAGAGTGGTGGCAAACGGTGGTTGCATGTGTTGGAACCATACAGACGACTGAAAGAAGAAGATCCCATTATTCCTTTTGGAGAAGGGCCCATCATCTCCAAATGGGGAGCCATTTCACGCGCTTCTCGCACCGGTTTTCACACCACTGACCCGGTCCAGGCCACAGCATCACAGGGGTGCACCGGTACCACCTCCATCAACTTCAGAGACTATGGCTGTCATATTGGTCACAGTGACCTTAGATGGGGCCCACGCAGTTCTGATTCCTCCACTCACTCCAGCTTTTTAGAAAGCGATCATCTGGCAGTTTCTGGACTGCATGCAAGACGAACTTCCTTCAGCAGTGGGACAAAGCAGGGCTTGGATCTGATGGGGAAGGATGAGACAGAGAATGAAACTGACAGGGATATTGAGCTGGAGCTGTCTGCTTTGGACATCGAGGACACAGAGACACACGACTGCAACTCGGAGGACACAATGGAAATGCAAAGCCGCTCCCAAAGCAGCCACCTCTCTACAGTCTTTAGTGATCCAGCATCCAGTTCACAGTTAGAAAATGACCTGCCTGACAGAATGGATGCTAACCTTATGAAAAAAATGGCATTCAGAAACACCCTCTCACCTGGAGGTCTGAGTATGAGGAAGATACCGATAAGAACGTGTTCACCCAGGCTTGGAGATTCCCGGCGCCCCAGTCCAGGACCTGAAATGCTGCTAAATGGTACCTGAATTGGGGTGGACGGAACATCCCTCCTTGTCTTCTAATGCCATGGGGTCATGCCAAGAATCCACCATCCTCCTTAGGTAGAAGGTAGAGTTGTCCTTATAGGAGTCAATCAAGGCAGCGAGTCGCAGCCAAAAAAGCCTTCTGTATTTATGTGTTCTCTTCATAAGAGCTAGCTATGCCCTGTAATTGTAATCACTCATCATCTGTTCGGAGTTGGTTTGTTTTTCTTAATCACTGCTTGTGGATGAATGTTCATGTTGAGTCACAACTCCACCTCAGGTAACTCTTgatgtcagccaatcagaacttgGTCCAAGCCAGGAAAACAATTTCCCATGTTCCCTAATTCTGTACAAAAGTGACGGTTTTCACTAGCTTTTAGCACACTGAGGAAACTATAATCTACGGTATTATGACTATATAGCGGAATCTTCCAATATATATCACGAATAACCATGGTGCTTGGAATCTGTAGTTCTtgcattattgttaatattaccGCAGTGTTAGCCACTGAAATGTTATGTGCATGAATTGTTTGTTGGGGATCATTGTTTGAAACATTCATTGACcgttgtttaaatgtgtttgtgtgtgtatgtgtgtatggattGTGGTAGATGTCTAATATCTCTAAGAGACATTTTACAGGCAGTCAGTCAAAACGTGTTTTCTTCACAAACTAAAGTGAAACAGttcgttaaaaaatgaaaattctttacTTTAGTCATTCCAAACTTATGATCCTGTGAAGTGGCCCAATGTGCCATTTCCAAACGTTATGAAGTTCTTTGTGAGGAATTTAAGTCAAGACCCTAAAAATCTTTCATTGTAGCTGTGAAATCTGTTGTGTTCATCTGTTCAAATTCAGATGTTTATTATCAAAAACTCATCAAAACTTATTGCATCAATTTTGTTGTCATTACTTATTTAGTCATACTCCAcgtgttccaaacctgtttgagttccaTTCTTCTGTTGTGCACAAAGAAAGATCTACTCAATTCTTGGGGAAAATAAGCCAGCCTTTGACTTGAGTAAAGGgaaagaatattcatttttgagtgaatcgTCCTTTTAAGTTAAGACTCAAAAGTGAAACAAGTGTTGAGTTGGGACAGAGACCAGTCGAGACTAAGACGTTCTGAGACACAATTTTTGAGTCAAGAATGTGACCAGAAGAGAGACTTGTTTTGAGTCAAGATAACCAGCATATGCATCAGGCTAAAGCAGTGGTTTTAAACCATctgccacattctgtctttatattttgCACTCAAAAGTGCTGTGAGTGATGGCATTTTGGATTTTGTCTTTCCAATGTAGTGGTTCTTGTAAAACACTTCTCAAAATACCTTAAATGGAtacggaaaaaaaaaatcaaactcgTTATAAAAAGTTAGATAAATTAAAGTTTCTGAGGCAAAATACGATTTACATAACATAAGGTTGAATATTGCAGTTTATTATTGAATAGTGCAATAAACTTTAGACAAGACATTTTGACTAGTCTTGAGTGATAACAAATACCGGATGAGTCTTAAGGTGCATCCCAGATGATTTATATTGCCCTCCAAAGGGCACTTCATAGTGAAAAAAAACAAGGCCGCCATTATGAGGTTTCATTTCAAACTGAAAATGATCAAACCTGGAATAATGTTTTCAGAGGGACCCTCCATATGATGAACCTTTCACAATGGAAGCCCCTCTCAGTCAAGACCAAGATCAGAAGAGGGACTTGTCTTGAGTCAAGACAACCAGCATACACATTAGGATAAAGCAATGGTTTTCAACCATCTgacacattctgtctttatattttgCACTCAAAAGTGCTGTAAGTGATGGCATTTTGGATTTTGTCATTTCAATTTAGTGGTTCTTGTCAAAACACTTCTCAAAATGCTCTCTACGGATATGAAAAACTAAAAATCAAACCATTTCTGACTATTTTGGACTGTTTTGTGTGCAATGAACTTTAGACAAGAAGTTTTGACTAGTCTTGAGTCATAACAAAGACTGGATGAGTCTTAAGGTGCATTCTTGACGAGATCTATTGCCCTTCAAAGggcaataaatgtaataaaatcaaGGCAGCCATATTGAAGTTTAATTTCAAACCGAAATGGTCAAAACTGGCCTAATCCCttgggctgggcaattaatcgaaaagtaatcaaaatcgactttcagaacctataatcaatcaaatttttcaaggacgattttttcaattactttccctacgtgGCCCACTTTGTTAAAGGTtgtggctgatttatacttctgcggccACTTTGCaaccacatctgatctctggtcaagtaggacgatgAATTC

Function

GO:

id name namespace
GO:0010608 posttranscriptional regulation of gene expression biological_process
GO:0016567 protein ubiquitination biological_process
GO:0006511 ubiquitin-dependent protein catabolic process biological_process
GO:0000209 protein polyubiquitination biological_process
GO:0043488 regulation of mRNA stability biological_process
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay biological_process
GO:0010494 cytoplasmic stress granule cellular_component
GO:0046872 metal ion binding molecular_function
GO:0004842 ubiquitin-protein transferase activity molecular_function
GO:0035613 RNA stem-loop binding molecular_function
GO:0003725 double-stranded RNA binding molecular_function
GO:0003729 mRNA binding molecular_function
GO:0061630 ubiquitin protein ligase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-060503-694 Predicted to enable RNA binding activity and ubiquitin protein ligase activity. Predicted to be involved in nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay; protein polyubiquitination; and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within posttranscriptional regulation of gene expression and protein ubiquitination. Predicted to be active in cytoplasmic stress granule. Orthologous to human RC3H2 (ring finger and CCCH-type domains 2).

Ensembl:

ensembl_id ENSDART00000091780

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005829 lncRNA upstream 469712 9122393 ~ 9125863 (+) True XLOC_001926
TCONS_00005681 lncRNA upstream 821916 8773436 ~ 8773659 (+) True XLOC_001919
TCONS_00005828 lncRNA upstream 879827 8709485 ~ 8715748 (+) True XLOC_001917
TCONS_00005680 lncRNA upstream 944720 8646959 ~ 8650855 (+) True XLOC_001913
TCONS_00003761 lncRNA upstream 1186700 8402096 ~ 8408875 (+) True XLOC_001907
TCONS_00005831 lncRNA downstream 173462 9823197 ~ 9835446 (+) True XLOC_001938
TCONS_00005685 lncRNA downstream 240956 9890691 ~ 9895543 (+) True XLOC_001939
TCONS_00003804 lncRNA downstream 528366 10178101 ~ 10195602 (+) False XLOC_001941
TCONS_00005686 lncRNA downstream 528433 10178168 ~ 10187258 (+) True XLOC_001941
TCONS_00005687 lncRNA downstream 638413 10288148 ~ 10295748 (+) False XLOC_001943
TCONS_00003796 mRNA upstream 24563 9553935 ~ 9571012 (+) False XLOC_001934
TCONS_00003795 mRNA upstream 24868 9550419 ~ 9570707 (+) False XLOC_001934
TCONS_00003797 mRNA upstream 29901 9561066 ~ 9565674 (+) True XLOC_001934
TCONS_00003794 mRNA upstream 175581 9410304 ~ 9419994 (+) True XLOC_001933
TCONS_00003793 mRNA upstream 200355 9372702 ~ 9395220 (+) True XLOC_001932
TCONS_00003801 mRNA downstream 47362 9697097 ~ 9810597 (+) True XLOC_001936
TCONS_00003805 mRNA downstream 560720 10210455 ~ 10274162 (+) True XLOC_001942
TCONS_00003806 mRNA downstream 663289 10313024 ~ 10326025 (+) False XLOC_001944
TCONS_00003807 mRNA downstream 663309 10313044 ~ 10325944 (+) True XLOC_001944
TCONS_00003808 mRNA downstream 701950 10351685 ~ 10380131 (+) True XLOC_001945
TCONS_00003791 other upstream 247069 9346396 ~ 9348506 (+) False XLOC_001931
TCONS_00003779 other upstream 715449 8869468 ~ 8880126 (+) False XLOC_001922
TCONS_00003778 other upstream 726680 8862521 ~ 8868895 (+) True XLOC_001921
TCONS_00003759 other upstream 1252270 8343188 ~ 8343305 (+) True XLOC_001906
TCONS_00003739 other upstream 2017524 7573316 ~ 7578051 (+) True XLOC_001890
TCONS_00003802 other downstream 76039 9725774 ~ 9725891 (+) True XLOC_001937
TCONS_00003803 other downstream 263328 9913063 ~ 9913177 (+) True XLOC_001940
TCONS_00003821 other downstream 1151970 10801705 ~ 10803356 (+) False XLOC_001951
TCONS_00003825 other downstream 1173020 10822755 ~ 10823448 (+) True XLOC_001951
TCONS_00003827 other downstream 1323075 10972810 ~ 10987302 (+) False XLOC_001952

Expression Profile

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