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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaggacagtcaaggaaaaattatgtcatgttttagaaattattgctcatattttaatggcctgattttgatcttgctgatggatttgaatgtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTGTTGAATCTCCTGAAACTGTTGTAGCTGCAGAGGAAGTTCATCAGGTGCC

Basic information

species Vitis vinifera
transcript Vv16s0050g01510.t01
intron # 3
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|110712988|gb|EE088514.1|EE088514
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|71859342|gb|DT008397.1|DT008397
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|110733197|gb|EE109180.1|EE109180
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|29782866|gb|CB348559.2|CB348559
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|29783203|gb|CB349232.2|CB349232
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|110694395|gb|EE071465.1|EE071465
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|161712354|gb|FC061928.1|FC061928
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCCGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|110686508|gb|EE064228.1|EE064228
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|32271506|gb|CD720665.1|CD720665
EST:     AGATTCAAGATTCACTATTTTGATAAAAGAATGCGAAGAGCGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACAAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|37187277|gb|CF606630.1|CF606630
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|46917631|gb|CN546960.1|CN546960
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|294964470|gb|GW838273.1|GW838273
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGCGCATTGCAG                         AGGAAAACTGATGGCCTACCAAAGCGGTCAGTGGTACAAGCCCCTGAAGCT
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAA-CTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCT
EST: gi|110729024|gb|EE105164.1|EE105164
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|28969441|gb|CB348474.1|CB348474
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|71863962|gb|DT013017.1|DT013017
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|71859797|gb|DT008852.1|DT008852
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|77581747|gb|DV219826.1|DV219826
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|110687406|gb|EE064790.1|EE064790
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|110693950|gb|EE070628.1|EE070628
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|110711614|gb|EE088295.1|EE088295
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|161711760|gb|FC058309.1|FC058309
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCA-                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|32249238|gb|CD715057.1|CD715057
EST:     AGATTCAAGATTCACTATTTTGATAAAAGAATGCGAAGAGCGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACAAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|110732977|gb|EE108734.1|EE108734
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|110723197|gb|EE100235.1|EE100235
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|161718657|gb|FC067946.1|FC067946
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|71857115|gb|DT006170.1|DT006170
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
EST: gi|71873209|gb|DT022264.1|DT022264
EST:     AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAG                         AGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG
genomic: AGATTCAAGATTCACTAATTTGATAAAAGAATGCGAAGAGTGCATTGCAGgtcaattttt ... gtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatattttaatggcctgattttgatcttgctgatggatttgaatgtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTGTTGAATCTCCTGAAACTGTTGTAGCTGCAGAGGAAGTTCATCAGGTGCC
                            tgctgat  putative branch site (score: 3)
                                              tttgttc  putative PPT
     ttttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaggacagtcaaggaaaaattatgtcatgttttagaaattattgctcatattttaatggcctgattttgatcttgctgatggatttgaatgtttgttcagAGGAAACTGATGGCCTACCAAAGCAGTCAGTGGTACCAGCCCCTGAAGCTGTTGAATCTCCTGAAACTGTTGTAGCTGCAGAGGAAGTTCATCAGGTGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - ggaaaaa
- - - - - - - - - - - - tcatgtt
- - - - - - - - - - - - - - - - -agaaatt
- - - - - - - - - - - - - - - - - - - - - -gctcata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggcctga