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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttcaaatccatgaacagccatttgccattgttccatttcaagctattttcttgggactgatggagggtttttactctctcttttgttttctttatgtgtgtatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAGCTGCGAGAGTTGACGGCAAAACACCCCTG

Basic information

species Vitis vinifera
transcript Vv07s0031g00350.t01
intron # 1
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|37185325|gb|CF604678.1|CF604678
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|71859221|gb|DT008276.1|DT008276
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|37185179|gb|CF604532.1|CF604532
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|71857191|gb|DT006246.1|DT006246
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|71858580|gb|DT007635.1|DT007635
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|352785883|gb|FQ475886.1|FQ475886
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|110728674|gb|EE104447.1|EE104447
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|71855811|gb|DT004866.1|DT004866
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|110701151|gb|EE078431.1|EE078431
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|37189880|gb|CF609229.1|CF609229
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|71856551|gb|DT005606.1|DT005606
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|29782008|gb|CB346952.2|CB346952
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
EST: gi|30124789|gb|CB910128.1|CB910128
EST:     ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAG                         TATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG
genomic: ACCAGGAGGTTGGCCACAAGAGTCTGTTACAGAGTGATGCTCTTTACCAGgtaaagttca ... tatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgatggagggtttttactctctcttttgttttctttatgtgtgtatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAGCTGCGAGAGTTGACGGCAAAACACCCCTG
 gactgat  putative branch site (score: 3)
                         ttttgttttctttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagttcaaatccatgaacagccatttgccattgttccatttcaagctattttcttgggactgatggagggtttttactctctcttttgttttctttatgtgtgtatcatgtagTATATACTTGAGACCAGCGTTTATCCCAGAGAGCCGAAGCCCATGAAAGAGCTGCGAGAGTTGACGGCAAAACACCCCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC