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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atcatccaggtattcaaactattttcttctaggtttgtgcaaaatacaagtctcactttcctttggctcactcctaatatatttgtatttgttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGTGCAGCAGATGGGAAAACGAGGGTTAGAGCTTCTGAACTCGGTCCCCATA

Basic information

species Vitis vinifera
transcript Vv10s0003g04100.t01
intron # 13
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|110730479|gb|EE107603.1|EE107603
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
EST: gi|110362061|gb|EC925568.1|EC925568
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
EST: gi|30126631|gb|CB911970.1|CB911970
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
EST: gi|110725721|gb|EE102546.1|EE102546
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
EST: gi|110381261|gb|EC946584.1|EC946584
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
EST: gi|110419857|gb|EC986111.1|EC986111
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
EST: gi|110387765|gb|EC952459.1|EC952459
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTA
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTA
EST: gi|110386444|gb|EC951038.1|EC951038
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
EST: gi|110424359|gb|EC990717.1|EC990717
EST:     TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCC                         GGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT
genomic: TTTGTTGACCGGGAGAATGATGTTCTTCTCCTTGGTGATGACCCCTGGCCgtgagttcct ... gttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaagtctcactttcctttggctcactcctaatatatttgtatttgttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGTGCAGCAGATGGGAAAACGAGGGTTAGAGCTTCTGAACTCGGTCCCCATA
                          tcctaat  putative branch site (score: 2)
                                          tttgtttt  putative PPT
                             taatatatttgtattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atcatccaggtattcaaactattttcttctaggtttgtgcaaaatacaagtctcactttcctttggctcactcctaatatatttgtatttgttttaccagGGAGTTTGTAAACAGCGTGTGGTGTATCAAGATACTCTCACTACAGGAAGTGCAGCAGATGGGAAAACGAGGGTTAGAGCTTCTGAACTCGGTCCCCATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
-tcatcca
- - - - - - -tcaaact
- - - - - - - - - - - - -cttctag
- - - - - - - - - - - - - - - - - - - -caaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcactc