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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atagaattgattttccattcccattctctatacccaaatttcaaatttgacaaatcaattttcagagagtttctgctaacttagatattcatttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATCACCTGAGGATGTTTCTACAAACCTCTAATTCCTCCTACAATTGATTAAT

Basic information

species Vitis vinifera
transcript Vv07s0005g01440.t01
intron # 20
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|30328490|gb|CD011752.1|CD011752
EST:     GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|110719153|gb|EE096802.1|EE096802
EST:     CAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: CAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|45770267|gb|CN006119.1|CN006119
EST:     GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|71874690|gb|DT023745.1|DT023745
EST:     GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|34362028|gb|CF403613.1|CF403613
EST:     ATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: ATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|22013914|gb|BQ798948.1|BQ798948
EST:     GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|110428353|gb|EC994822.1|EC994822
EST:     GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|45771559|gb|CN007411.1|CN007411
EST:     GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|110424565|gb|EC990929.1|EC990929
EST:     GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
EST: gi|32268218|gb|CD717377.1|CD717377
EST:     GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATG
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATG
EST: gi|22011563|gb|BQ796597.1|BQ796597
EST:     GTTAGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAG                         ATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC
genomic: GTTGGCAAAAACAAAGGAACAGACTGCAGTTTCTTCATAAAACGTGGAAGgtaaaattgg ... atttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgacaaatcaattttcagagagtttctgctaacttagatattcatttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATCACCTGAGGATGTTTCTACAAACCTCTAATTCCTCCTACAATTGATTAAT
                            tgctaac  putative branch site (score: 1)
                                          ttcattttt  putative PPT
                                   ttagatattcattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atagaattgattttccattcccattctctatacccaaatttcaaatttgacaaatcaattttcagagagtttctgctaacttagatattcatttttgtagATTCAGATGAACTATTTGAAGCTTTGTGTGGGTCACATATGGTTACAGATCACCTGAGGATGTTTCTACAAACCTCTAATTCCTCCTACAATTGATTAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - ccattcc
- - - - - - - - - - -cattctc
- - - - - - - - - - - - - - - - cccaaat
- - - - - - - - - - - - - - - - - - - - - - - - - -aaatcaa