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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgatttcataaacctttttccttgatctaacttgatcttcccttttctctgttcttgttcctaacttgccacaatgtttttctctcatgtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTTGCATTGAACCAGCCTTGCATGTGTCCTGGATGGATCTATTGCTGCTATA

Basic information

species Vitis vinifera
transcript Vv16s0098g01040.t01
intron # 10
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|110394549|gb|EC959681.1|EC959681
EST:     ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
genomic: ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
EST: gi|110693868|gb|EE070476.1|EE070476
EST:     ATTGCAGCCCTTAACTGTAGTGGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCAGCCTT
genomic: ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
EST: gi|254917332|gb|GR906158.1|GR906158
EST:     ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
genomic: ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
EST: gi|110406292|gb|EC971861.1|EC971861
EST:     ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
genomic: ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
EST: gi|110371491|gb|EC935557.1|EC935557
EST:     ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
genomic: ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
EST: gi|22015516|gb|BQ800550.1|BQ800550
EST:     GGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCAGCCTT
genomic: GGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
EST: gi|45770361|gb|CN006213.1|CN006213
EST:     ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
genomic: ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
EST: gi|27586314|gb|CB009009.1|CB009009
EST:     ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACACCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
genomic: ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
EST: gi|110385680|gb|EC950225.1|EC950225
EST:     ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAG                         AGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT
genomic: ATTGCAGCCCTTAACTGTAGCGGCGCCATTTTAGGATCCCTGCCTATAAGgtttgatttc ... gtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctctgttcttgttcctaacttgccacaatgtttttctctcatgtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTTGCATTGAACCAGCCTTGCATGTGTCCTGGATGGATCTATTGCTGCTATA
               tcctaac  putative branch site (score: 1)
                                 tttttctctcatgt  putative PPT
                             aatgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgatttcataaacctttttccttgatctaacttgatcttcccttttctctgttcttgttcctaacttgccacaatgtttttctctcatgtgtatacagAGTCAGCCCATCAAAGACGCCTGTCAGGCCACGAGCTCCTCGCCCGGCCTTGCATTGAACCAGCCTTGCATGTGTCCTGGATGGATCTATTGCTGCTATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT