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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttacttttttcctctgatgcaattttattttcactattcatcatttttttttcagttccataacatttcttgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTT

Basic information

species Vitis vinifera
transcript Vv13s0067g01290.t01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 14
-------gttacttttttcctctgatgcaat--tttattttcactattcatcattttt---ttttcagt-tccataacatttcttgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTT
        ||  || ||   |   ||   |   |||   ||     | |||  |  ||   |  ||| | ||     | |   |||| ||  ||||  |||| |||||  | || ||||||||||||||||||||||| ||  | || ||||| ||||| || |||||||| ||||| || ||||| ||||| |
gttagtatttgattgttcatttcaatatgaacatttgccttagacctgcatgctgcttaactactcaatgtcttctgcttggattgtcttgtagGTTTTGGAGATCAACTTAGTGACTTACCCAAATGTTGCAGATGCCATTCTTGCGAATGGTATGTTCAGTCATTATGACCGTCCTCGTATTGCTCAGCTCT

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 16
----gttactttt-ttcctctgatgcaattttattttcactattcatcatttttttttcagtt-ccataacatttc---ttgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTT
    ||  | ||| || |||    |  ||     ||  ||| |  |   | ||| ||| |  |   |  |  ||     ||| | | |||||  |||| || |||||||| |||| ||| |||||||| ||||| ||||| || ||||| ||||| ||||||||||| ||||| || |||||||||||||
gtgtgtggcctttgtttctcatccgttatgggcattctactctgaaaattctttctttgaactgttacgatcttgtgaattgctgttcagGTGTTGGAGATAAATCTGGTGACTTTCCCCAATGTTGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAGCTTT

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA14G06340.2 (Glycine max), 3'ss of exon 16
--gttactttt-ttcctctgatgcaattttattttcactattcatcatttttttttca-gttccataacatttc---ttgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTT
  ||  | ||| || |||   ||  ||     ||| ||| |  |   | ||| ||| | ||   |  |  ||     |   | | |||||  |||| || |||||||| |||| ||| |||||||| ||||| ||||| || ||||| ||||| ||||||||||| ||||| || |||||||| ||||
gtgtggcctttgtttctcatctgttatgggcattttactctgaaaattctttctttgaagtgttacgatgttgtgaatcactgttcagGTGTTGGAGATAAATCTGGTGACTTTCCCCAATGTTGCTGATGCAATATTGGCTAATGGCATGTTCAGCCATTATGACCGTCCTCGTATTGCCCAACTTT

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 16
------gttacttttttcctctgatgcaattttattttcactattcatcatttttttttcagttccataacatttcttgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTT
         | ||    ||| | |      | |  |||| ||| ||| | |  ||| ||        ||        |     ||||||  |||| |||||| ||||||| |  || ||||| || ||||| || ||||||||||||||||| ||||||||||| || || ||  |||| |||||||
gttgaaaagagttgccaccttttacttctctgtgctttccctactcaccttcctttcttagaccttttagtgcactct-caacacagGTTTTGGAGATCAATTTGGTAACCTTTCCTAATGTGGCTGATGCAATCTTAGCAAATGGGATGTTCAGCCATTATGACCGGCCTCGTGTTGCTCAGCTTT

upper sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 16
-------gttacttttttcctctgatgcaattttattttcactattcatcatttttttttcagttccataacatttcttgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTT
        |   |     | | |    |    || ||||| ||| ||| | | |||        |   |||    | ||     |||||| ||||| || ||| |||||||||  || ||||| || |||||  ||||||||||||||||||| | ||| ||||| || || || ||||| || ||||
gttgaaaatagttgccaccttgtatctctccgtttttttctctactcaccttctttccccagactgtttaaatcatttttcaacacagGTTCTGGAGATAAATTTGGTAACTTTTCCTAATGTGGCTGATGCGGTATTAGCAAATGGGATGTTCACCCACTATGACCGGCCTCGCATTGCTCAACTTT

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|122689653|gb|EC942290.1|EC942290
EST:     TAGATGTTTTGAAGCCAAATTTACCTGAGCATGGTTTCCTGCAAACAAAG                         GTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTA
genomic: TAGATGTTTTGAAGCCAAATTTACCTGAGCATGGTTTCCTGCAAACAAAGgttacttttt ... tgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattttcactattcatcatttttttttcagttccataacatttcttgttttacagGTCCTGGAAATCAATCTGGTAACTTACCCAAATGTTGCAGATGCTATATTAGCAAATGGGATGTTTAGCCATTATGATCGTCCACGGATTGCCCAGCTTT
                                ccataac  putative branch site (score: 3)
                                        tttcttgtttt  CT-rich tract
         tattcatcattttttt  TA-rich tract