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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caagaccagtgaattttggcttctgtcaatggttcctagttggaaattcttttccagttgattgtgtttcttcctcatatgttttagcttcttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTTCAGTGACGGCTACCAAGCGACTGCTGTATGCAAAGCTGTGACAAGTGGG

Basic information

species Vitis vinifera
transcript Vv17s0000g08840.t01
intron # 2
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|110727426|gb|EE104169.1|EE104169
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|110688621|gb|EE067381.1|EE067381
EST:     AAGGCACTTGGTGCTGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|351017129|gb|FQ424556.1|FQ424556
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|110389942|gb|EC954817.1|EC954817
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|51051287|gb|CO818980.1|CO818980
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|110707540|gb|EE084053.1|EE084053
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|110728680|gb|EE104459.1|EE104459
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|349823849|gb|FQ415260.1|FQ415260
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|71867555|gb|DT016610.1|DT016610
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|110702232|gb|EE080708.1|EE080708
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAAGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|110399716|gb|EC966237.1|EC966237
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|110385447|gb|EC949973.1|EC949973
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|351036157|gb|FQ464002.1|FQ464002
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|349823850|gb|FQ415261.1|FQ415261
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
EST: gi|110376196|gb|EC941245.1|EC941245
EST:     AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATG                         GTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT
genomic: AAAGCACTTGGTGCCGATATTGTTGTACCTGAAAGCTACACAAAGACATGgtactttgtt ... cttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcttttccagttgattgtgtttcttcctcatatgttttagcttcttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTTCAGTGACGGCTACCAAGCGACTGCTGTATGCAAAGCTGTGACAAGTGGG
          agttgat  putative branch site (score: 5)
                                    ttttagcttcttct  putative PPT
                               atatgtttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caagaccagtgaattttggcttctgtcaatggttcctagttggaaattcttttccagttgattgtgtttcttcctcatatgttttagcttcttctatcagGTACATGAAACGTTTAGCAGGTGAGATGAGCCCTTCTGCAGGTTTGAATTTCAGTGACGGCTACCAAGCGACTGCTGTATGCAAAGCTGTGACAAGTGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
-aagacca
- - - - - - - - - - - ctgtcaa
- - - - - - - - - - - - - - -tggttcc
- - - - - - - - - - - - - - - - - - tagttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - -ccagttg