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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtaattgttgcatcttactggttattattggaagcaatatatcagatgaccattttctactttacagctgattctgtatgatgttttgacttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG

Basic information

species Arabidopsis thaliana
transcript AT4G05420.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 4
cgtaattgttgcatcttactggttatt---attggaagcaatatatcagatgaccattttctactttacagctgattctgt-atgatgttttgacttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG
    |||  || ||||||||    |||   |||   || ||        ||||   | ||||  | |     | ||||| | ||| | | ||       | ||| |||||||||||||||||||| || ||||| || || ||||| |||||||||
---gatttctgtatcttactataaattgaaattcctagtaagggcatgaatgattgtcttct-ttatctgtttaattctcttatgttatgttattgccatccagGGCAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAG

upper sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 4
----cgtaattgttgcatcttactggttattattggaagcaatatatcagatgaccattttctactttacagctgattctgtatgatgttttgacttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG
    | | ||||       | ||    || ||| |     | | ||| |||     ||||   || ||   ||     |  |   ||| | |   || ||  ||||||||||| ||||| || ||||||||||| || || ||||||||||| |||
ttggcttgattgaaaaccttgacactctaatat-gtctatactttatgaga-atttatttgtcacattcttgcatcaacaattccatgctct--tttcttgtagAGCAATGGGAGATGTCTCAGATCGTATAGGTCGTCCTACAGACAATGGACAG
















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|116455518|gb|EG498110.1|EG498110
EST:     AAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAG                         AGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCA
genomic: AAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAGgtatagcttc ... cttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCA
EST: gi|116382313|gb|EG424905.1|EG424905
EST:     AAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAG                         AGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCA
genomic: AAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAGgtatagcttc ... cttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCA
EST: gi|116382318|gb|EG424910.1|EG424910
EST:     AAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAG                         AGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCA
genomic: AAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAGgtatagcttc ... cttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCA
EST: gi|116382315|gb|EG424907.1|EG424907
EST:     AAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAG                         AGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCA
genomic: AAATTCTGTGTTCTTCAATGGGATCCTGAGTCCTCTGAGCTTATTACAAGgtatagcttc ... cttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgaccattttctactttacagctgattctgtatgatgttttgacttttttcagAGCAATGGGGGATGTTTCTGATCGTATAGGCCGGCCAACAGACAATGGTCAG
                                       ttttgac  putative branch site (score: 3)
                                       ttttgacttttttc  CT-rich tract
       attttcta  TA-rich tract