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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTGTGTTGTTTGAAAGCAACTTCTTGATGGGAGGAAGATCAAATGGACATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagttttccctcagaactacatcttccctcattctaattagttgcatgcatatgttgatacaattctcctactcatggtggggcaaacag

Basic information

species Vitis vinifera
transcript Vv17s0000g03210.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g03210.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA08G05410.1 (Glycine max), 5'ss of exon 3
ATTGTGTTGTTTGAAAGCAACTTCTTGATGGGAGGAAGATCAAATGGACATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgt-atgtagttttccctcag----aactacatcttccctcattctaattagttgcatgcatatgttg---atacaattctcctactcatggtggggcaaacag--------------------------
||  || || || || | |   |  | ||||| |||  |  ||||  |||||| |  | ||  ||||||||||| |||||||| |||||||| |||||||| || |  |||| |||||     | ||   | ||   |  | | |  || ||  || |  ||| |    ||  | |   | | | ||| ||                                     
ATAATGATGCTTCAAGGGAGTCTACTAATGGGTGGACAACTAAATTCACATGATCATTTCAAAGACTGGAGACTTGATGTTGATAACATGTCCTATGAGgtgattttttttttcctcaagtaaagctgtctatttttttgtacca--taattatatccccatgctatttatgtattgtccgtgcacattgttttatgtgtgtcaaaacttctggtttgtgtttgatag

upper sequence: Vv17s0000g03210.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA07G10930.1 (Glycine max), 5'ss of exon 3
ATTGTGTTGTTTGAAAGCAACTTCTTGATGGGAGGAAGATCAAATGGACATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagttttccctcagaactacatcttccctcattctaatt----agt--------tgcatgcatatgttgatacaattctcct----actcatggtggggcaaacag
||  || |  || || | |   |  ||||||| ||| |||   ||  ||| |||| ||  || ||||||||||| |||||||| ||||||||||| |||||  |   | || |  | |   || || |||| |  || | |||    | |        ||  |||| ||| |  | || |  || |    | |  ||||      |||||
ATAATGATACTTCAAGGAAGAATAATGATGGGGGGACGATTTGATTCACACGACCAATTTAGAGACTGGAGACTTGATGTTGATAACATGTCATACGAGgtgagagatctttctcccg--ttaaatgttccattgtttttattttgtaatggattttgtgtctgcacatgcttctgcattgttcatcaaaatttctggtttctgtaacag

upper sequence: Vv17s0000g03210.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA05G34270.1 (Glycine max), 5'ss of exon 3
ATTGTGTTGTTTGAAAGCAACTTCTTGATGGGAGGAAGATCAAATGGACATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgt-atgtagttttccctcagaactacatcttccctcattcta-attagttgcatgca-tatgttg---ataca-attctcctactcatggtggggcaaacag--------------
||  || || || || | |   |  | ||||| |||  |  ||||  |||||| |  | ||| ||||||||||| |||||||| |||||||| |||||||| || |  |  ||    | |  |   | ||  ||  | | | ||||  | |      |||||||    | || ||| |  ||    ||      |     |              
ATAATGATGCTTCAAGGGAGTCTACTAATGGGTGGACAACTAAATTCACATGATCATTTCAGAGACTGGAGACTGGATGTTGATAACATGTCCTATGAGgtgattttttcctcaagtaaagatgtctattttcttgtacaatattatatccccatgctatgttgtccgtgcacattgttttatatgtgtcaaaacttctggtttgtgtttgatag

upper sequence: Vv17s0000g03210.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA09G31170.1 (Glycine max), 5'ss of exon 3
ATTGTGTTGTTTGAAAGCAACTTCTTGATGGGAGGAAGATCAAATGGACATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagttttccctcagaactacatcttccctcattct-aattagt--tgcatgcatatgttgatacaatt---ctcctactcatggtggggcaaacag-----------------
||  || |  ||  | | |   |  ||||||| ||| |||  |||  ||| |||| ||  || ||||||||||| |||||||| ||||||||||| |||||  |   | || |  | |   || || |||| | ||| | | || ||  |||||   |||||   |  ||||    |  |   ||| ||    ||||                    
ATAATGATAATTCGAGGAAGAATAATGATGGGGGGACGATTTAATTCACACGACCAATTTAGAGACTGGAGACTTGATGTTGATAACATGTCATACGAGgtgagggttctttctcctg--ttaaattttccattatttttagtttgtaatgcattt-tatgtgtgtttaattacatttttctccattgttcatcaaaatttctggtttgtctaacag

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|30306299|gb|CB983093.1|CB983093
EST:     ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAG                         GAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
genomic: ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagtt ... gggcaaacagGAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
EST: gi|110374948|gb|EC939894.1|EC939894
EST:     ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAG                         GAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
genomic: ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagtt ... gggcaaacagGAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
EST: gi|110373308|gb|EC937530.1|EC937530
EST:     ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAG                         GAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
genomic: ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagtt ... gggcaaacagGAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
EST: gi|34545120|gb|CF513352.1|CF513352
EST:     ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAG                         GAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
genomic: ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagtt ... gggcaaacagGAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
EST: gi|34546115|gb|CF514347.1|CF514347
EST:     ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAG                         GAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
genomic: ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagtt ... gggcaaacagGAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA
EST: gi|30306363|gb|CB983157.1|CB983157
EST:     ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAG                         GAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAC
genomic: ATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagtt ... gggcaaacagGAACTGCTTGAGCTTGGTGATCGAATCGGGTATGTGAGTACAGGACTGCAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTGTGTTGTTTGAAAGCAACTTCTTGATGGGAGGAAGATCAAATGGACATGACCGATACAGGGACTGGAGACTAGATGTTGACAACATGTCATATGAGgtatgtagttttccctcagaactacatcttccctcattctaattagttgcatgcatatgttgatacaattctcctactcatggtggggcaaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA