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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCTAGAGACGATGGAATGGACTGCTGATAAGTGGAGAGATGCGGATATATTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttctttcttcttgttaacattctaaatattaatcagattggtttggttccttgactgaacttgaatttgttactgcag

Basic information

species Arabidopsis thaliana
transcript AT5G19160.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G19160.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv05s0020g02810.t01 (Vitis vinifera), 5'ss of exon 2
AGCTAGAGACGATGGAATGGACTGCTGATAAGTGGAGAGATGCGGATATATTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttctttcttcttgttaacattctaaat--attaatcagattggtttggttccttgactgaacttgaatttg-ttactgcag--------------
|  | ||    ||||| ||||   |    |||||||||||||||||| |  | ||||| ||||||||||| |||||||| |||||||| || ||  | |||| |  ||  | ||    |    | | ||   |  ||| ||    |   |||  | |  | |      ||| ||| | ||   | |               
AATTGGATCAAATGGATTGGAGCTCCATGAAGTGGAGAGATGCGGATGTGCTGGTGTTCAACACGGGTCACTGGTGGAATTATGAGAAGACCATAAGAGGgt-aatttaatcctgtaggacctcgtccttcctgcatttatattgtctatttattacactaagaatttttggattgggttgtaggaatcctgggaatgatt
















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|116460428|gb|EG503020.1|EG503020
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTTTCAAGAAGGAGAAAAAGTAAGAATGAGAATGAAGATAGA
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTTTCAAGAAGGAGAAAAAGTAAGAATGAGAATGAAGATAGA
EST: gi|116447138|gb|EG489730.1|EG489730
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTTTCAAGAAGGAGAAAAAGTAAGAATGAGAATGAAGATAGA
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTTTCAAGAAGGAGAAAAAGTAAGAATGAGAATGAAGATAGA
EST: gi|116447171|gb|EG489763.1|EG489763
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTT
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTT
EST: gi|116447193|gb|EG489785.1|EG489785
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTTTC
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTTTC
EST: gi|116447104|gb|EG489696.1|EG489696
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTTTCAAGAAGG
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTTTCAAGAAGG
EST: gi|116447249|gb|EG489841.1|EG489841
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTTTCAAGAAGGAGAAAAAGTAAGAATGAGAATGAAGATAGA
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTTTCAAGAAGGAGAAAAAGTAAGAATGAGAATGAAGATAGA
EST: gi|116447116|gb|EG489708.1|EG489708
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTTTCAAGAAGGAGAAAAAGTAAGAATGAGAATGAAGATAGA
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTTTCAAGAAGGAGAAAAAGTAAGAATGAGAATGAAGATAGA
EST: gi|116447215|gb|EG489807.1|EG489807
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTT
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTT
EST: gi|116447071|gb|EG489663.1|EG489663
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTTT
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTTT
EST: gi|116447204|gb|EG489796.1|EG489796
EST:     TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGG                         AGGTTGTTACTT
genomic: TTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttct ... gttactgcagAGGTTGTTACTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGCTAGAGACGATGGAATGGACTGCTGATAAGTGGAGAGATGCGGATATATTAGTGTTTAACACGGGTCATTGGTGGAACTATGAGAAAACTATTCGCGGgttagcttctttcttcttgttaacattctaaatattaatcagattggtttggttccttgactgaacttgaatttgttactgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA