Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggatttgaaccctttttttactaagcttaaaattggaatgctgttggttagacatttcctttctgtgttttcatggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAATGAACTGGAGAGACAGAAAGAAGAGATCTTAAAGTTCTACTCCCCTGCAT

Basic information

species Vitis vinifera
transcript Vv08s0007g04470.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g04470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G37230.2 (Glycine max), 3'ss of exon 5
gtaaggatttgaaccctttttttactaagcttaaaatt----ggaatgctgttggttagacatttcctttctgtgttttcatggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAATGAACTGGAGAGACAGAAAGAAGAGATCTTAAAGTTCTACTCCCCTGCAT
||||| ||   || ||| |  ||| || ||||     |        |  || ||  ||   | ||  | |   |  |  |||||  |||||| |||||||| |||||||| ||||||||||||||  |||||||| ||||||| || ||||  ||||||||||| || || || ||  | ||| | ||||
gtaagaatac-aatcctatgattagtatgcttttttcttttcaatttattgctgactactgactttttcttcttcctcccatggaaacagTGTAGAATAATTCGGACAACCGAGTTAGCTGCTGCTAAGGAGAAACTAAATGAGCTTGAGAAGCAGAAAGAAGACATGTTGAAATTGAATTCCGCAGCAT

upper sequence: Vv08s0007g04470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G34540.1 (Glycine max), 3'ss of exon 5
gtaaggatttgaaccctttttttactaagcttaaaa--ttggaat--gctgttggttagacatttcctttctgtgttttcatggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAATGAACTGGAGAGACAGAAAGAAGAGATCTTAAAGTTCTACTCCCCTGCAT
||||| ||   || ||| |  ||| || ||||      ||  |||    || ||  ||   | ||  | |   |  |  |||||  |||||| |||||||| || ||||| ||||||||||||||  |||||||||||||||| || ||||  ||||||||||| || || || ||  | ||||| ||||
gtaagaatac-aatcctatggttagtatgcttttttcttttcaattcattgctgactactgaatttttcttcttcctcccatggaaacagTGTAGAATAATTCGAACAACTGAGTTAGCTGCTGCTAAGGAGAAATTAAATGAGCTTGAGAAGCAGAAAGAAGACATGTTGAAATTGAATTCCCCAGCAT
















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|351014668|gb|FQ437868.1|FQ437868
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|110425086|gb|EC991463.1|EC991463
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|110423993|gb|EC990346.1|EC990346
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351016936|gb|FQ424363.1|FQ424363
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351012120|gb|FQ429926.1|FQ429926
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351014504|gb|FQ437506.1|FQ437506
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAA                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|34547676|gb|CF515908.1|CF515908
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|32456148|gb|CD797322.1|CD797322
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|32249995|gb|CD715814.1|CD715814
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|352790359|gb|FQ477999.1|FQ477999
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|110381804|gb|EC935428.1|EC935428
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351013583|gb|FQ429724.1|FQ429724
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|22013072|gb|BQ798106.1|BQ798106
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351043786|gb|FQ431338.1|FQ431338
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351053031|gb|FQ456638.1|FQ456638
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|110706591|gb|EE082261.1|EE082261
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|32271871|gb|CD721030.1|CD721030
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|30128535|gb|CB913874.1|CB913874
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|349832473|gb|FQ421034.1|FQ421034
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCGG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|33403009|gb|CF208636.1|CF208636
EST:     GAGAGAACTTGGAGAAGGAACCCCAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCCCAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351027883|gb|FQ448453.1|FQ448453
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGGATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351057218|gb|FQ450925.1|FQ450925
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGCGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTACACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|351027610|gb|FQ446774.1|FQ446774
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|110399849|gb|EC966379.1|EC966379
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|349828235|gb|FQ416188.1|FQ416188
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCCGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|349823580|gb|FQ414990.1|FQ414990
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|33402920|gb|CF208547.1|CF208547
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|349827859|gb|FQ422727.1|FQ422727
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|110416745|gb|EC982747.1|EC982747
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
EST: gi|110369862|gb|EC934032.1|EC934032
EST:     GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAG                         TGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT
genomic: GAGAGAACTTGGAGAAGGAACCACAGATAGTGGAACTGAGAAATCAGgtaaggattt ... atggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaattggaatgctgttggttagacatttcctttctgtgttttcatggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAATGAACTGGAGAGACAGAAAGAAGAGATCTTAAAGTTCTACTCCCCTGCAT
                                        ttttcat  CT-rich tract
                                        ttttcat  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggatttgaaccctttttttactaagcttaaaattggaatgctgttggttagacatttcctttctgtgttttcatggccacagTGCAGAATAATCCGGACAACAGAGTTAGCTGCTGCACAGGAGAAATTAAATGAACTGGAGAGACAGAAAGAAGAGATCTTAAAGTTCTACTCCCCTGCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC