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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttctaaacttggcagattagtgcaggaattagttgtcaatttacttgactttttttgtatttactttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCAAAGGAGAGAAAAGCTCCATGGGAGTCGCGGGAGGCCAACCGTTATGAAC

Basic information

species Vitis vinifera
transcript Vv02s0109g00360.t01
intron # 6
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|32247861|gb|CD713680.1|CD713680
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCNA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|33405830|gb|CF211457.1|CF211457
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|33401498|gb|CF207125.1|CF207125
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTT-T--ATCGTGAAACGAATTCAA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAA
EST: gi|351030119|gb|FQ430861.1|FQ430861
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|352798554|gb|FQ480579.1|FQ480579
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|32247300|gb|CD713119.1|CD713119
EST:     ACCCAAACGAGAGAGGANAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATG
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATG
EST: gi|32459230|gb|CD800404.1|CD800404
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|110418134|gb|EC984253.1|EC984253
EST:     ACCCAAATGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTT-T--ATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|34321097|gb|CF373851.1|CF373851
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|110692473|gb|EE071759.1|EE071759
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|32270337|gb|CD719496.1|CD719496
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCA-                         TACTTCTTTATCGTGA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGA
EST: gi|110426088|gb|EC992485.1|EC992485
EST:     ACCCAAATGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TA---CTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
EST: gi|33405748|gb|CF211375.1|CF211375
EST:     ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAA                         TACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA
genomic: ACCCAAACGAGAGAGGAAAGTTACTCATTCCTTTTATTTTAGCCTTCCAAgtaagcttct ... tttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgcaggaattagttgtcaatttacttgactttttttgtatttactttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCAAAGGAGAGAAAAGCTCCATGGGAGTCGCGGGAGGCCAACCGTTATGAAC
                       acttgac  putative branch site (score: 4)
                                        tttacttt  putative PPT
                            actttttttgtattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcttctaaacttggcagattagtgcaggaattagttgtcaatttacttgactttttttgtatttactttacgacagTACTTCTTTATCGTGAAACGAATTCAACGGGCAATCAAAAGTGATATGGCAAAGGAGAGAAAAGCTCCATGGGAGTCGCGGGAGGCCAACCGTTATGAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA