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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actggtatttttgagagtttgcttgcttgtgttgattcatcatatactgtaggaaactacatagttcaaaatttaatctctgtttttttcttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATGGCAGATGAGGAGCCAAAACCCCTCACATACATACCTGAGGTGATTTTGA

Basic information

species Vitis vinifera
transcript Vv09s0070g00130.t01
intron # 1
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|110729308|gb|EE105444.1|EE105444
EST:     CCAAACGCCGCGTTTCGATCGATCTCTGAGTTAAG                         GGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
genomic: CCAAACGCCGCGTTTCGATCGATCTCTGAGTTAAGgtactgatcc ... ttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
EST: gi|110723130|gb|EE100088.1|EE100088
EST:     TTCGATCGATCTCTGAGTTAAG                         GGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
genomic: TTCGATCGATCTCTGAGTTAAGgtactgatcc ... ttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
EST: gi|71858171|gb|DT007226.1|DT007226
EST:     TTCAATCATTTTTCTCCAAACGCCGCGTTTCGATCGATCTCTGAGTTAAG                         GGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
genomic: TTCAATCATTTTTCTCCAAACGCCGCGTTTCGATCGATCTCTGAGTTAAGgtactgatcc ... ttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
EST: gi|110702626|gb|EE078762.1|EE078762
EST:     CGATCTCTGAGTTAAG                         GGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
genomic: CGATCTCTGAGTTAAGgtactgatcc ... ttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
EST: gi|161710238|gb|FC058954.1|FC058954
EST:     GATCTCTGAGTTAAG                         GGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
genomic: GATCTCTGAGTTAAGgtactgatcc ... ttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
EST: gi|71854852|gb|DT003907.1|DT003907
EST:     TTCAATCATTTTTCTCCAAACGCCGCGTTTCGATCGATCTCTGAGTTAAG                         GGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
genomic: TTCAATCATTTTTCTCCAAACGCCGCGTTTCGATCGATCTCTGAGTTAAGgtactgatcc ... ttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
EST: gi|110731600|gb|EE106153.1|EE106153
EST:     TTCAATCATTTTTCTCCAAACGCCGCGTTTCGATCGATCTCTGAGTTAAG                         GGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG
genomic: TTCAATCATTTTTCTCCAAACGCCGCGTTTCGATCGATCTCTGAGTTAAGgtactgatcc ... ttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgtaggaaactacatagttcaaaatttaatctctgtttttttcttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATGGCAGATGAGGAGCCAAAACCCCTCACATACATACCTGAGGTGATTTTGA
                         atttaat  putative branch site (score: 4)
                          tttaatctctgttttt  CT-rich tract
                      aaaatttaatctctgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
actggtatttttgagagtttgcttgcttgtgttgattcatcatatactgtaggaaactacatagttcaaaatttaatctctgtttttttcttttgaacagGGAAGTGTTAATTTGGTGTCTTCTCCTTATTAAAGGAGTTTAGAAATCATGGCAGATGAGGAGCCAAAACCCCTCACATACATACCTGAGGTGATTTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - gcttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - gaaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaaaat