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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgaaaacaaatgcttctaacagttcatttgcaagctaattaatttctaagttgttgcacatgaaacattgttgctaactatccttttccttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTTTGCCAAGTTCTTCACTAAGCCATTTCAGCAAAGGAGAGCGGGTCATTGG

Basic information

species Vitis vinifera
transcript Vv09s0018g02130.t01
intron # 33
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|110357641|gb|EC921275.1|EC921275
EST:     AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|110357398|gb|EC920911.1|EC920911
EST:     AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|34364429|gb|CF406014.1|CF406014
EST:     GCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATT-GGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: GCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|110418515|gb|EC984675.1|EC984675
EST:     AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|110392228|gb|EC957499.1|EC957499
EST:     AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|110364160|gb|EC923438.1|EC923438
EST:     AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGCCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|87585718|gb|DY474322.1|DY474322
EST:     CTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: CTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|30330120|gb|CD013382.1|CD013382
EST:     CTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: CTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|110379425|gb|EC944618.1|EC944618
EST:     AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|110388963|gb|EC953768.1|EC953768
EST:     GGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: GGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
EST: gi|110358395|gb|EC922574.1|EC922574
EST:     AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAG                         CTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT
genomic: AAACTCAGTTGGAAATTATGGATGGTTTCTTTGGCAATTGGCCTTGTCAGgtttgtacca ... cttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaagttgttgcacatgaaacattgttgctaactatccttttccttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTTTGCCAAGTTCTTCACTAAGCCATTTCAGCAAAGGAGAGCGGGTCATTGG
                            tgctaac  putative branch site (score: 1)
                                  ctatccttttccttct  CT-rich tract
                   aaacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgaaaacaaatgcttctaacagttcatttgcaagctaattaatttctaagttgttgcacatgaaacattgttgctaactatccttttccttctggcagCTGGCCTCTGGCCATCATTGGGAAACTCATTCCAGTTCCTGAGACTCCCTTTGCCAAGTTCTTCACTAAGCCATTTCAGCAAAGGAGAGCGGGTCATTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - -aaacaaa
- - - - - - tgcttct
- - - - - - - - - - - - - catttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcacatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgct