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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaacaattttcttctttccaatgttacatgaaacgagtgttctcttgtatgactcctgtgggtttttccataatgtagGCCCTCGAGAGTTTTATGCTGAGGTGTCCAAGAGATATATCTCCATATTGTGAGGGTATTTTAAATCTTGCATTGGAATATATAAGCTATGATCCAAATT

Basic information

species Oryza sativa
transcript LOC_Os02g07120.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g07120.1 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G168629_T05 (Zea mays), 3'ss of exon 7
gtgaacaattttcttctttccaatgttacatgaaacgagtgttctcttgtatgactcctgtgggtttttccataatgtagGCCCTCGAGAGTTTTATGCTGAGGTGTCCAAGAGATATATCTCCATATTGTGAGGGTATTTTAAATCTTGCATTGGAATATATAAGCTATGATCCAAATT
|||   |  | | ||  ||  |   ||   |   |   ||||||| ||| || |   ||     | ||||    || ||||| || ||||| |||||||| ||||| ||||| |||||||| |||||||||||||| || || |||||||| ||||||||| | ||||||||||| ||||
gtgtgaatctgttttgatttaatattttttttgtatctgtgttct-ttgaattagctcta-aaatctttctgccatatagGCTCTTGAGAGCTTTATGCTCAGGTGCCCAAGGGATATATCCCCATATTGTGAGGGCATCTTGAATCTTGCTTTGGAATATGTGAGCTATGATCCTAATT
















RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 73 (upstream exon), 69 (downstream exon)
Score: 39

CCGTTTTGGGCCACACCTTGCTGAAGCTGTTCCTTTGCTCATAAACTATTGTACAAGTGCATCGGAAAATGATGAAGAGCTCCGTGAATACAGCTTGCAGgtgaacaatt ... cataatgtagGCCCTCGAGAGTTTTATGCTGAGGTGTCCAAGAGATATATCTCCATATTGTGAGGGTATTTTAAATCTTGCATTGGAATATATAAGCTATGATCCAAATT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacatgaaacgagtgttctcttgtatgactcctgtgggtttttccataatgtagGCCCTCGAGAGTTTTATGCTGAGGTGTCCAAGAGATATATCTCCATATTGTGAGGGTATTTTAAATCTTGCATTGGAATATATAAGCTATGATCCAAATT
                                       tttttccat  CT-rich tract
                                              ataatgta  TA-rich tract