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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tactacatgaaccatattgcccatgaatctgaatgaaaggatttattcatgcaatgcctgtgctgactgctgatattgtggtttgtttctttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATGGATGGCCTTCTGAAGGTTCATAAACGAATTGTTGATGGGTTAGAAGGTG

Basic information

species Vitis vinifera
transcript Vv14s0081g00440.t01
intron # 3
splice site 3'
intron type U2

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|71864338|gb|DT013393.1|DT013393
EST:     GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCT                         GTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
genomic: GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCTgtaagttagt ... ttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
EST: gi|161714350|gb|FC062651.1|FC062651
EST:     GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCT                         GTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
genomic: GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCTgtaagttagt ... ttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
EST: gi|71855957|gb|DT005012.1|DT005012
EST:     ATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCT                         GTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
genomic: ATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCTgtaagttagt ... ttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
EST: gi|161718668|gb|FC067950.1|FC067950
EST:     GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCT                         GTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
genomic: GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCTgtaagttagt ... ttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
EST: gi|110356545|gb|EC919451.1|EC919451
EST:     GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCT                         GTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
genomic: GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCTgtaagttagt ... ttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
EST: gi|71862998|gb|DT012053.1|DT012053
EST:     GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCT                         GTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCC
genomic: GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCTgtaagttagt ... ttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCC
EST: gi|110732776|gb|EE108358.1|EE108358
EST:     GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCT                         GTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG
genomic: GAGCTCGCATTAAGATTCTTGATGGTCCTCCAGGGACAGCAGAAAGAGCTgtaagttagt ... ttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcatgcaatgcctgtgctgactgctgatattgtggtttgtttctttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATGGATGGCCTTCTGAAGGTTCATAAACGAATTGTTGATGGGTTAGAAGGTG
                                    tttgtttcttttt  CT-rich tract
                                        tttcttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tactacatgaaccatattgcccatgaatctgaatgaaaggatttattcatgcaatgcctgtgctgactgctgatattgtggtttgtttctttttgaacagGTAATGGTATCTGCAAAGGAGGAGCCTGATTCTTCTCTTCCACCGGCCATGGATGGCCTTCTGAAGGTTCATAAACGAATTGTTGATGGGTTAGAAGGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- ctacatg
- - - - -aaccata
- - - - - - - - - -cccatga
- - - - - - - - - - - - - - - -aatgaaa
- - - - - - - - - - - - - - - - - - - - - - - - - -caatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgctg