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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatagcaagacttggtggagatacattgtttagtttgtaataaaagctgacggattcctttcaaaggtcatatcggattgatcaatttacatagtttcttgtctgttcttgttgtagTTGTAAGCGTAGGTGCGGCTCTCTTCTTGTTTCAACAGTTAGCCGGGATAAACGCAGTTGTGTATTACTCCACATCGGTATTCCGTAGTGCGGGAATCCA

Basic information

species Arabidopsis thaliana
transcript AT5G16150.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G16150.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GRMZM2G153704_T01 (Zea mays), 3'ss of exon 13
gtatagcaagacttggtggagatacattgttta-gtttgtaataaaagctgacggattcctttcaaaggtcatatcggattgatcaatttacatagtttcttgtctgttcttgttgtagTTGTAAGCGTAGGTGCGGCTCTCTTCTTGTTTCAACAGTTAGCCGGGATAAACGCAGTTGTGTATTACTCCACATCGGTATTCCGTAGTGCGGGAATCCA
               ||   ||||  |   ||   ||     |||||  | |  || ||  | |   |||       ||     ||||  |  |  | |  | | |||     ||| |||||| || || || || || || || ||||| || ||| | || || |||||||| ||||| |||||||| |||||||| ||||||||||| || ||   
---------------gttttgatatgtgaattgcattcaacctaaaacgtcaatgaatcgatactgtggtgg----agaccctacaatacatgttttctgatatatgtctcatttgcagTTGTGAGTGTGGGGGCAGCACTGTTTTTGTTCCAGCAGCTTGCTGGTATAAACGCTGTTGTATATTACTCTACATCGGTGTTCCGTAGTGCAGGCATTGC
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|125097130|gb|EL153691.1|EL153691
EST:     TGAGCCGGAGGCAGGATGGTTTGATCTATTCAGCAGCCGCTACTGGAAAG                         TTGTAAGCGTAGGTGCGGCT
genomic: TGAGCCGGAGGCAGGATGGTTTGATCTATTCAGCAGCCGCTACTGGAAAGgtatagcaag ... cttgttgtagTTGTAAGCGTAGGTGCGGCT
EST: gi|125315264|gb|EL329349.1|EL329349
EST:     CCGGAGGCAGGATGGTTTGATCTATTCAGCAGCCGCTACTGGAAAG                         TTGTAAGCGTAGGTGCGGCTCTCTTCTTGTTTCAACAGTTAGCCGGGATAA
genomic: CCGGAGGCAGGATGGTTTGATCTATTCAGCAGCCGCTACTGGAAAGgtatagcaag ... cttgttgtagTTGTAAGCGTAGGTGCGGCTCTCTTCTTGTTTCAACAGTTAGCCGGGATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaggtcatatcggattgatcaatttacatagtttcttgtctgttcttgttgtagTTGTAAGCGTAGGTGCGGCTCTCTTCTTGTTTCAACAGTTAGCCGGGATAAACGCAGTTGTGTATTACTCCACATCGGTATTCCGTAGTGCGGGAATCCA
             gattgat  putative branch site (score: 4)
                                tttcttgtctgttctt  putative PPT
                     aatttacatagttt  TA-rich tract