RNA id: TCONS_00003800


Basic Information

Item Value
RNA id TCONS_00003800
length 2975
RNA type mRNA
GC content 0.54
exon number 17
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

ATGCCGGTGCAGGCAGCTCAATGGACCGAGTTTTTATCCTGCCCTATCTGCTATAATGAGTTTGATGCCTGCAGCCACAAGCCAATCAGCCTCGGCTGCTCGCACACCGTCTGCAAGACCTGCCTCCACAAACTGCACCGCAAGGCCTGTCCTTTTGACCAGACGGCTATCAGCACTGACATTGATGTGCTGCCTGTCAACTGTGCCCTCCTGCAGCTGGTGGGGGTGCCGGTTCCTGAGGGAGAGGTTGTGAGTGTGGGCAATGCTGAAGACACGAGACATTATGAAGTGTGCAGGATGTGTGTGGAGGAGCTGGCGCTGTACCTCAAACCAGTCAGTGGAGGAAAAGGTGTAATGTCGGCGAGTTCAAGTGCTCTCAGTCGGCCCATGCAGAGGAAGCTGGTGACGCTGGTGAACTGTCAGCTGGTGGAGGAAGAGGGCCGCGTGCGGGCGGTGCGGGCCTGCAGGTCTCTGGGTGAACGAACCGTCACTGAGCTCATCCTGCAGCACCAGAACCCACAGCAGCTCTCTGCAAACCTGTGGGCTGCAGTAAGGGCACGCGGGTGCCAGTTCCTTGGGCCTGCCATGCAGGAGGATGCTCTGAAGCTGGTGCTGTTGGCTCTGGAGGATGGATCTGCTCTGTCAAGGAAGGTTCTGGTTCTGTTTGTGGTGCAGAAACTGGAAGCGCGGTTTCCTCAGGCGTCAAAGACCAGCATAGGGCATGTGGTTCAGCTGCTGTATCGAGCCTCCTGCTTTAAGGTGACCAAACGTGATGAAGACTCGTCACTTATGCAGCTCAAAGAAGAGTTTCGCACGTATGAAGCCCTGCGGCGAGAACACGATGCTCAGATTGTTCACATCGCGATGGAAGCAGGACTGCGCATTTCACCTGAGCAGTGGTCATCTCTGCTGTACGGCGACCTCACGCACAAATCTCACATGCAGTCCATCATAGATAAGCTTCAGTCCCCAGAATCCTTTGCGAAGAGCGTGCAGGAGCTCACCATAATCCTGCAGAGAACAGGAGACCCAGCCAACCTGAACAGCCTCAGAGCTCCTCTCGAGCTGCTGGCCGGCATCGACCACAACCCTGatgcagCTGCTCCATCTTGGCCAGAGCTTGAGAGTGTGTTACTAGCCGTGAAGGTTGTTGTCCATGGGCTTGTGGAGTTCATCCAAAATTTTAGCAAAAAGAGCAATGAAAGCCCTCAGGCTCAACCCAACAGCAAGTACAAAACAAGTATGTGCAGGGACTTACGGCAGCAAGGCGGCTGCCCGAGAGGAGCCAGCTGTACATTTGCCCACACGCAAGAGGAGTTGGAGAAGCACAGAATGAGAAATAGGAAAGCTAGTGGGGCGGTGAGGCCGTTTCTGTCAGTTCCAGCAGTGATGGCCAAATCTTGCACCAAGGCAGGGTCAGAGGTAGGCCCCGGAGGGATAAAGAACCATGAGAAAGATGCCTCAGAGGACGTGTCTCCAACTCAGCTCATCCCTAGAGGAGGAGACCAGCAGGAGGACAAAATGCTGCTCAGTGGTGTTAACGGATTGCATGTGACCAGCCTAGAACAgaaTCTTGGCAGTCACAGCCAGTCTCCTTCCATATCTTCAGTGATGTCTACAGACAGACACGGGCATGTCCAGATGAGGGCTCACCCTGAGTACTGCTCTCAGGACCAGAGACCATATGAGCTGACACCCTACCCTCAGTCCACCATTCCTCCGAAGTCATGCAGTCCTCGCTTCCATCGTTCCAGCAATGTGCCCGAGTCCATGTTACCCCCTTCAGTGGGTCCTGTGTATCCTGATCAGCACCCCTCTGTTCCTGCTTTAGACAGACTAGGCCCAAGTCATTTTGGGCCGCCCTCTGCCTACTCCTCTCATGGCATGTACACCCCTGTTTACGACAGCCGGCGCGTGTGGAGGCCACCGCTGTATCCCAGGGATGGAGGAAGGAGTAACTCTCTCCCTCTAGAGGTTTTTCGATCCACTGTTTATCAGCCACCGCTCCGGGAGCGATACAACTCTCTAGACAGTCCATACTGCAGCACGACGGAGCAGAGAGCCACTATGCACAGGGCAGGTTTTGACGCATACACTCGTGTTGATGAACTCTATCGACACAAACAGGAACACTGGGTACATCACCACAGCAATGTGAACCGGGCATCCCAGTCATCCCCAGTCTTCACTGTGGACATGTGTCCAGAGCATCCCGAGGGTGTAGGTGGTGGGCGTATGACTTGCAAGTGTCATGGTGGAGAAGAGAGTCTTGCCCACTACTCGCCCTGGTCGTGCAGCACCATCAGCCCATTTGAGTCAGAGCCCCATCATTTGCCAACCCACTCCTGTTCCAAACATCTAGAAGAGGAGAGTGGTGGCAAACGGTGGTTGCATGTGTTGGAACCATACAGACGACTGAAAGAAGAAGATCCCATTATTCCTTTTGGAGAAGGGCCCATCATCTCCAAATGGGGAGCCATTTCACGCGCTTCTCGCACCGGTTTTCACACCACTGACCCGGTCCAGGCCACAGCATCACAGGGGTGCACCGGTACCACCTCCATCAACTTCAGAGACTATGGCTGTCATATTGGTCACAGTGACCTTAGATGGGGCCCACGCAGTTCTGATTCCTCCACTCACTCCAGCTTTTTAGAAAGCGATCATCTGGCAGTTTCTGGACTGCATGCAAGACGAACTTCCTTCAGCAGTGGGACAAAGCAGGGCTTGGATCTGATGGGGAAGGATGAGACAGAGAATGAAACTGACAGGGATATTGAGCTGGAGCTGTCTGCTTTGGACATCGAGGACACAGAGACACACGACTGCAACTCGGAGGACACAATGGAAATGCAAAGCCGCTCCCAAAGCAGCCACCTCTCTACAGTCTTTAGTGATCCAGCATCCAGTTCACAGTTAGAAAATGACCTGCCTGACAGAATGGATGCTAACCTTATGAAAAAAATGGCATTCAG

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 ENSDART00000147997

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005829 lncRNA upstream 475724 9122393 ~ 9125863 (+) True XLOC_001926
TCONS_00005681 lncRNA upstream 827928 8773436 ~ 8773659 (+) True XLOC_001919
TCONS_00005828 lncRNA upstream 885839 8709485 ~ 8715748 (+) True XLOC_001917
TCONS_00005680 lncRNA upstream 950732 8646959 ~ 8650855 (+) True XLOC_001913
TCONS_00003761 lncRNA upstream 1192712 8402096 ~ 8408875 (+) True XLOC_001907
TCONS_00005830 lncRNA downstream 1784 9646503 ~ 9661896 (+) False XLOC_001935
TCONS_00005682 lncRNA downstream 4653 9649372 ~ 9661381 (+) False XLOC_001935
TCONS_00005683 lncRNA downstream 4885 9649604 ~ 9661896 (+) False XLOC_001935
TCONS_00005684 lncRNA downstream 4930 9649649 ~ 9661896 (+) True XLOC_001935
TCONS_00005831 lncRNA downstream 178478 9823197 ~ 9835446 (+) True XLOC_001938
TCONS_00003796 mRNA upstream 30575 9553935 ~ 9571012 (+) False XLOC_001934
TCONS_00003795 mRNA upstream 30880 9550419 ~ 9570707 (+) False XLOC_001934
TCONS_00003797 mRNA upstream 35913 9561066 ~ 9565674 (+) True XLOC_001934
TCONS_00003794 mRNA upstream 181593 9410304 ~ 9419994 (+) True XLOC_001933
TCONS_00003793 mRNA upstream 206367 9372702 ~ 9395220 (+) True XLOC_001932
TCONS_00003801 mRNA downstream 52378 9697097 ~ 9810597 (+) True XLOC_001936
TCONS_00003805 mRNA downstream 565736 10210455 ~ 10274162 (+) True XLOC_001942
TCONS_00003806 mRNA downstream 668305 10313024 ~ 10326025 (+) False XLOC_001944
TCONS_00003807 mRNA downstream 668325 10313044 ~ 10325944 (+) True XLOC_001944
TCONS_00003808 mRNA downstream 706966 10351685 ~ 10380131 (+) True XLOC_001945
TCONS_00003791 other upstream 253081 9346396 ~ 9348506 (+) False XLOC_001931
TCONS_00003779 other upstream 721461 8869468 ~ 8880126 (+) False XLOC_001922
TCONS_00003778 other upstream 732692 8862521 ~ 8868895 (+) True XLOC_001921
TCONS_00003759 other upstream 1258282 8343188 ~ 8343305 (+) True XLOC_001906
TCONS_00003739 other upstream 2023536 7573316 ~ 7578051 (+) True XLOC_001890
TCONS_00003802 other downstream 81055 9725774 ~ 9725891 (+) True XLOC_001937
TCONS_00003803 other downstream 268344 9913063 ~ 9913177 (+) True XLOC_001940
TCONS_00003821 other downstream 1156986 10801705 ~ 10803356 (+) False XLOC_001951
TCONS_00003825 other downstream 1178036 10822755 ~ 10823448 (+) True XLOC_001951
TCONS_00003827 other downstream 1328091 10972810 ~ 10987302 (+) False XLOC_001952

Expression Profile

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