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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgaaaatttttccgtttctgttcataatttacatgaattggctgttgttttaggtttctgaaatttgagttttttttccccctttttggataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCGGAACCGATTTAGAGACCTGCCGAGATGAGTCAGGCGCACTCACTCTCAA

Basic information

species Vitis vinifera
transcript Vv04s0008g01260.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|349825966|gb|FQ415771.1|FQ415771
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|352794662|gb|FQ475160.1|FQ475160
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|161705797|gb|FC056668.1|FC056668
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|352777867|gb|FQ466920.1|FQ466920
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|294964322|gb|GW838125.1|GW838125
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|110686005|gb|EE063219.1|EE063219
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|33407784|gb|CF213411.1|CF213411
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|161715784|gb|FC065151.1|FC065151
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|351017415|gb|FQ435768.1|FQ435768
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
EST: gi|161714515|gb|FC062965.1|FC062965
EST:     TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGG                         AGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG
genomic: TCCGGTGCTTTCCTTTGGACGGTTGAAGGGAAAGACCATGATTTTTTCGGgtaaagaaag ... gataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgttttaggtttctgaaatttgagttttttttccccctttttggataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCGGAACCGATTTAGAGACCTGCCGAGATGAGTCAGGCGCACTCACTCTCAA
                          ttttttttcccccttt  CT-rich tract
                 aaatttgagttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aatgaaaatttttccgtttctgttcataatttacatgaattggctgttgttttaggtttctgaaatttgagttttttttccccctttttggataaaacagAGTCGATGCTACGGACAATTTCTCAATCTATGGCCACAACGAGTTGCGGCGGAACCGATTTAGAGACCTGCCGAGATGAGTCAGGCGCACTCACTCTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
-atgaaaa
- - - - - - - - - - - - - - - - -catgaat
- - - - - - - - - - - - - - - - - - - - tggctgt