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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtccagattgtgtttttatgttagtttctcttcgttatcgagttactgtgatttgagttactgattgttgtttaatgcagTGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTTTTCATGACAGAGACATAGCACCTGATGGCACTACACTTGAG

Basic information

species Arabidopsis thaliana
transcript AT5G57655.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G57655.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os07g47290.1 (Oryza sativa), 3'ss of exon 5
gtaagtccagattgtgtttttatgtt-agtttctcttcgttatcgagttac-tgtgatttgagttactgattgttgtttaa--------tgcagTGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTTTTCATGACAGAGACATAGCACCTGATGGCACTACACTTGAG
||| | | |     || ||| ||||| || |||  ||| ||||  | || |  ||    | | | |   | |  ||| | |        ||||||||||||| ||||||||||| || |||| |||||||||||  ||||||| || |||||||| || || || ||||||||||  |||||   |
gtatggctattacctggtttcatgtttaggttcagttcattatgaatttgcacgtttgcttaatcaacaacttctgtctgaattgttattgcagTGAGAGCTCACTTTGAGTTCATGGAGAAGCTTGGAGTTGACAGGTGGTGCTTCCATGACAGGGATATTGCCCCTGATGGCAAAACACTCACG

upper sequence: AT5G57655.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA17G07380.1 (Glycine max), 3'ss of exon 5
gtaagtccagattgtgtttttatgttagt-ttctcttcgttatcgagtta--ctgtgatttgagttactgat-tgttgtttaatgcagTGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTTTTCATGACAGAGACATAGCACCTGATGGCACTACACTTGAG
||| ||  |   |    | |   |||  | | ||   | ||      ||    ||||     |  ||    | | ||  |||   ||||||||||||||||||||||| | |  ||||| || ||||| |  |||||||| || ||||| || ||||| |||||||| |  || ||||||
gtatgttaattcttgactctccagttgatatacttcacattcagatatttgtttgtgtcacaaaataaaattctcttaattatcacagTGAGAGCTAACTTTGAGTTCATAAGCAAACTCGGTGTTGACTTTTGGTGTTTCCACGACAGGGATATAGCCCCTGATGGAAAAACTCTTGAG
















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|86055233|gb|DR350990.1|DR350990
EST:     TTGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAGAGAAGAA                         TGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTT
genomic: TTGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAGAGAAGAAgtaagtccag ... tttaatgcagTGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTT
EST: gi|164059866|gb|ES166275.1|ES166275
EST:     TTGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAGAGAAGAA                         TGAGAGCTAACTTTGAGTTCTTGAAGA
genomic: TTGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAGAGAAGAAgtaagtccag ... tttaatgcagTGAGAGCTAACTTTGAGTTCTTGAAGA
EST: gi|116424348|gb|EG466940.1|EG466940
EST:     TTGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAGAGAAGAA                         TGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTT
genomic: TTGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAGAGAAGAAgtaagtccag ... tttaatgcagTGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTT
EST: gi|301501388|gb|HO206928.1|HO206928
EST:     TTGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAGAGAAGAA                         TGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTT
genomic: TTGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAGAGAAGAAgtaagtccag ... tttaatgcagTGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTT
EST: gi|164067780|gb|ES116169.1|ES116169
EST:     TGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCTAAAGAGAAGAA                         TGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGG
genomic: TGGCCTTGGGAAGATGGTACTAACTCTGTGTCTATGGCT-AAGAGAAGAAgtaagtccag ... tttaatgcagTGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcttcgttatcgagttactgtgatttgagttactgattgttgtttaatgcagTGAGAGCTAACTTTGAGTTCTTGAAGAAACTTGGAGTTGATTGGTGGTGTTTTCATGACAGAGACATAGCACCTGATGGCACTACACTTGAG
                                          ttgtttaat  TA-rich tract