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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttcattcccgttgaactatatgtttactatcctatgaattttaatgccccataatcttattacttccattggagttcttatttctgatatacctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT

Basic information

species Vitis vinifera
transcript Vv02s0025g02530.t01
intron # 2
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|351023755|gb|FQ448306.1|FQ448306
EST:     TCTGAAGAAAGTCAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTCGGCCATTCCTCCTTGGAGT
genomic: TCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|351026858|gb|FQ436511.1|FQ436511
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTCAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|351020085|gb|FQ445692.1|FQ445692
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|349832656|gb|FQ422014.1|FQ422014
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|37184744|gb|CF604098.1|CF604098
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTCAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|351014624|gb|FQ437626.1|FQ437626
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTCAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|351023984|gb|FQ423407.1|FQ423407
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTCAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|351025815|gb|FQ427827.1|FQ427827
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTCAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|110391840|gb|EC956843.1|EC956843
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTCAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
EST: gi|351029228|gb|FQ435428.1|FQ435428
EST:     GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTCAGAAGCGGA                         GGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
genomic: GAAAATTCACTGATGGTGGAGTTAAGTTTCTGAAGAAAGTTAGAAGCGGAgtatgttttc ... cctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccccataatcttattacttccattggagttcttatttctgatatacctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT
     taatcttattactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttttcattcccgttgaactatatgtttactatcctatgaattttaatgccccataatcttattacttccattggagttcttatttctgatatacctgatgcagGGTGTTGATCCAAGTATTAGAGTGGAGGTTTGGCCATTCCTCCTTGGAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG