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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGAACAATATTTCTGGGGATTTTGATTCCCTTTGTGAAAATCCCAAGGCAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAGgttccttttctctaccctttctttattaccatttggctgtgacccattttttcacctccaccaagagaaaaagcatggaataacttattgacctctgaaagctactcgtctgattttgtgatttttaaattgttcttggcag

Basic information

species Vitis vinifera
transcript Vv02s0025g01410.t01
intron # 17
splice site 5'
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|30125801|gb|CB911140.1|CB911140
EST:     CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAG                         TTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
genomic: CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAGgttccttttc ... ttcttggcagTTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
EST: gi|110375957|gb|EC940989.1|EC940989
EST:     CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAG                         TTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
genomic: CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAGgttccttttc ... ttcttggcagTTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
EST: gi|27580341|gb|CB003036.1|CB003036
EST:     CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAG                         TTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
genomic: CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAGgttccttttc ... ttcttggcagTTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
EST: gi|352781554|gb|FQ468398.1|FQ468398
EST:     CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAG                         TTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
genomic: CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAGgttccttttc ... ttcttggcagTTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
EST: gi|32245315|gb|CD711134.1|CD711134
EST:     CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAG                         TTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
genomic: CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAGgttccttttc ... ttcttggcagTTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
EST: gi|27755362|gb|CB036117.1|CB036117
EST:     CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAG                         TTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT
genomic: CAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAGgttccttttc ... ttcttggcagTTGAAAGGTTTTGAGTTTGTCAAAGCAGTTCACCTTGACCCTGTGCCATTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAGAACAATATTTCTGGGGATTTTGATTCCCTTTGTGAAAATCCCAAGGCAAAAGAATACATACTTGGAGAGCTCTCAAAGATTGGGAAGGAGAAAAAGgttccttttctctaccctttctttattaccatttggctgtgacccattttttcacctccaccaagagaaaaagcatggaataacttattgacctctgaaagctactcgtctgattttgtgatttttaaattgttcttggcag

- - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA