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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaacgaaattgtattgctttcatcggattctctaatctgagaactgtagctttttagctgatattttaatttggatacagGGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGAACTCTTTACGATGGCGAAACTCGTCTCTTTTTGCGACATGATG

Basic information

species Arabidopsis thaliana
transcript AT5G63620.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G63620.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G00740.2 (Glycine max), 3'ss of exon 4
gtgagaacgaaattgtattg----ctttcatcggattctctaatctgagaactgtagctttttagctgatattttaatttggatacagGGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGAACTCTTTACGATGGCGAAACTCGTCTCTTTTTGCGACATGATG
    | |  | ||||| ||     |||   ||  ||    | |   ||    |||   || ||         |  || |   ||||||||||||||||||||||||||||  |||||||| || ||| | || || ||||| || || ||||| |||||||| |||||||| ||| |   ||
----gtaaaatattgtgttagacacttcactcttatatgttgactggattcatgttcattgttgatgttgtctccaaatgttatacagGGCCATGATGATCTATGTGAAGCTTTCTTTGCCTATAACCGGGCAAAAGGAACCCTCTATGATGGTGAAACTCGACTCTTTTTTCGAAACAGTG

upper sequence: AT5G63620.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G33140.1 (Glycine max), 3'ss of exon 3
gtgagaacgaaattgtattgctttcatcggattctctaatctgagaactgtagctttttagctgatat----tttaatttggatacagGGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGAACTCTTTACGATGGCGAAACTCGTCTCTTTTTGCGACATGATG
         | | ||| ||     | ||    | | |  |    | | | | | |  || | |||| |    |  || | | ||||||||||||||||||||||||||||  |||||||| || ||| | || || ||||| || || ||||| |||||||| || ||||| ||| |   ||
------gtaatactgtgttaaacacttcactctgtatgttaactggattcttgttcatt-gttgatgttgtctccaaatggtatacagGGCCATGATGATCTATGTGAAGCTTTCTTTGCCTATAACCGGGCAAAAGGAACCCTCTATGATGGTGAAACTCGACTTTTTTTTCGAAACAGTG

upper sequence: AT5G63620.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv07s0031g03150.t01 (Vitis vinifera), 3'ss of exon 3
----------------------------------------------------------gtgagaacgaaattgtattgctt-tcatcggattctctaatctgagaactg-tagc--tttttagc---------tgatattttaatttggatacagGGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGAACTCTTTACGATGGCGAAACTCGTCTCTTTTTGCGACATGATG
                                                           |  ||| |   |  ||||  || ||||  |      | |     |||| |  |||  ||| | |          |||| ||| |||||||| ||||||||| |||||| ||||||| || ||||||||||| ||  | || || ||||| ||||| ||||| |||||  | || ||  | ||  |  |||
gtgtgacaacatttacatttttttcattaacctttgattggtgctatcactactgcttctatgaatgttgtgatatttattgtcatttgtcatcgtcaaggaggaacagacagcactttctggtactgttcattgatttttgaatttggaaacagGGCCAGGATGATTTATGTGAGGATTTCTTTGCTTATAATCGGGCAAAAGGAACCCTTTATGATGGTGAAACAAGGCTATTCCTACGCAACAATG

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|301502831|gb|HO208371.1|HO208371
EST:     TAGTTGGAGCTTTCATTATGCCTTGTGGAACCTGTTCTTATTGTGCTAAG                         GGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGA
genomic: TAGTTGGAGCTTTCATTATGCCTTGTGGAACCTGTTCTTATTGTGCTAAGgtgagaacga ... ttggatacagGGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGA
EST: gi|164157732|gb|EL985033.1|EL985033
EST:     TGCCTTGTGGAACCTGTTCTTATTGTGCTAAG                         GGCCATGATGATCTA
genomic: TGCCTTGTGGAACCTGTTCTTATTGTGCTAAGgtgagaacga ... ttggatacagGGCCATGATGATCTA
EST: gi|152038511|gb|AV826144.2|AV826144
EST:     TAGTTGGAGCTTTCATTATGCCTTGTGGAACCTGTTCTTATTGTGCTAAG                         GGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGA
genomic: TAGTTGGAGCTTTCATTATGCCTTGTGGAACCTGTTCTTATTGTGCTAAGgtgagaacga ... ttggatacagGGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gattctctaatctgagaactgtagctttttagctgatattttaatttggatacagGGCCATGATGATCTATGTGAAGACTTCTTTGCTTACAACAGAGCCAAGGGAACTCTTTACGATGGCGAAACTCGTCTCTTTTTGCGACATGATG
                                      ttttaat  putative branch site (score: 3)
                         tttttagctgatattt  TA-rich tract