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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCGGTTTATATCGTGTACACAATGCTAGGGGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaacctactatttctaaaataactgatctctgtttcattcagagtttgattctttgttgtgttttttctcgtggtgcag

Basic information

species Arabidopsis thaliana
transcript AT1G15370.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G15370.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv09s0002g06730.t01 (Vitis vinifera), 5'ss of exon 3
GTCGGTTTATATCGTGTACACAATGCTAGGGGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaacctacta--tttctaaaataactgatctctgtttcattcagagtttgattctttgttgtgttttttctcgtggtgcag---------------
 || || |||||||| |||||  |||| || ||||| |||||||   |||| ||||| || ||||||||||||||||||||||||  ||  |   |   ||  |  |   ||  | |     || |  ||  | | |       | | | |   ||     |   ||                
ATCAGTGTATATCGTTTACACGGTGCTCGGAGATGTCAGCATCTATGTTGTGGGCAAGGATGAGTATGATGAACTTGCTTgtaagtatattcatttgggttcttttagctac--accatgaatttaagcaaggataggcagaa-gctatctgactttcaaagtgacaacttcacctctccctg
















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|86081993|gb|DR377752.1|DR377752
EST:     GGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTT                         TGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
genomic: GGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaa ... cgtggtgcagTGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
EST: gi|152035004|gb|BP841901.2|BP841901
EST:     GGATGTTAGCATCTTCCGTGTGGGCAAAGACGAGTATGAGGAACTTGCTT                         TGGCAGAAACCATCTATATCATAACAGGGGCTGTGAAAGAC
genomic: GGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaa ... cgtggtgcagTGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGAC
EST: gi|125008651|gb|EL080920.1|EL080920
EST:     GGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTT                         TGGCAGAAACCATCTATATC
genomic: GGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaa ... cgtggtgcagTGGCAGAAACCATCTATATC
EST: gi|124725380|gb|EH816782.1|EH816782
EST:     TGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTT                         TGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGT
genomic: TGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaa ... cgtggtgcagTGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGT
EST: gi|163969465|gb|ES040113.1|ES040113
EST:     GTATGATGAACTTGCTT                         TGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
genomic: GTATGATGAACTTGCTTgtaagcctaa ... cgtggtgcagTGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
EST: gi|164022840|gb|ES149064.1|ES149064
EST:     GATGAACTTGCTT                         TGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
genomic: GATGAACTTGCTTgtaagcctaa ... cgtggtgcagTGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
EST: gi|152035520|gb|BP856874.2|BP856874
EST:     GGATGTTAGCATCTTCCTTGTGGGCAAAGACGAGTATGATGAACTTGCTT                         CGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
genomic: GGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaa ... cgtggtgcagTGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
EST: gi|86076188|gb|DR371945.1|DR371945
EST:     GGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTT                         TGGCATAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA
genomic: GGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaa ... cgtggtgcagTGGCAGAAACCATCTATATCATAACAGCGGCTGTGAAAGACGTATGTGGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCGGTTTATATCGTGTACACAATGCTAGGGGATGTTAGCATCTTCCTTGTTGGCAAAGACGAGTATGATGAACTTGCTTgtaagcctaacctactatttctaaaataactgatctctgtttcattcagagtttgattctttgttgtgttttttctcgtggtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG