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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatattctttctgttaagattcttcaacattaatcttgttaatggggaaagccaaaatcaacattgtaaactccaacacaatgcagGAGGTTTCATTGCGTTTAAACCATCGATTCCAAAAAGCTTGTTACTTGACGGGAAGCATACCATTGAATCGCATTTTATCCTCGTTAATCACCAA

Basic information

species Arabidopsis thaliana
transcript AT2G35610.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G35610.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA11G09650.1 (Glycine max), 3'ss of exon 5
---gtaatattctttctgttaa-----gattcttcaa--cattaatcttgttaatggggaaagccaaa---atcaacattgtaaactccaacacaatgcagGAGGTTTCATTGCGTTTAAACCATCGATTCCAAAAAGCTTGTTACTTGACGGGAAGCATACCATTGAATCGCATTTTATCCTCGTTAATCACCAA
   |    |  |     ||||       ||| |||||  ||||| | || |||   |   | |    |    |  ||    | ||    |||    |||||| || ||| |  | ||||| ||||| ||||||||||||||||| ||    ||||| ||||||||||||||||||||||  || |||||| |||||
tatgctgaaaacccaaagttagcatttaatttttcaatgcattatttttattatctgcctatgattgatatgttgactccttgaaagg-aactttttgcagGGGGCTTCTTGTCATTTAAGCCATCTATTCCAAAAAGCTTGTTGCTAAGTGGGAATCATACCATTGAATCGCATTTTAGACTTGTTAATTACCAA

upper sequence: AT2G35610.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA01G35690.1 (Glycine max), 3'ss of exon 7
-----------gtaatattctttctgttaagattcttcaacattaatcttgttaa-tggggaaagccaaaatcaacattgtaaactccaacacaatgcagGAGGTTTCATTGCGTTTAAACCATCGATTCCAAAAAGCTTGTTACTTGACGGGAAGCATACCATTGAATCGCATTTTATCCTCGTTAATCACCAA
                |   |  |  ||||  ||      ||||| | |  |||  ||   |  |   | ||    | |    |     |     |||||| || ||| |  | ||||| || || ||||||||||||||||| ||    |||||||||||||||||||| |||||||  || |||||| |||||
ttatgctgaaaacccaaagttggcacttaatgtttcaatgcattattttcattatctgcctatggttgatatgttgactcctcatgaggaacttttgcagGGGGCTTCTTGTCATTTAAGCCTTCTATTCCAAAAAGCTTGTTGCTAAGTGGGAAGCATACCATTGAATCACATTTTACACTTGTTAATTACCAA
















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|164110256|gb|ES083345.1|ES083345
EST:     TATTATGATTCACCAG                         GAGGTTTCATTGCGTTTAAACCATCGATTCCAAAAAGCTTGTTACTTGACG
genomic: TATTATGATTCACCAGgtaatattct ... cacaatgcagGAGGTTTCATTGCGTTTAAACCATCGATTCCAAAAAGCTTGTTACTTGACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcttgttaatggggaaagccaaaatcaacattgtaaactccaacacaatgcagGAGGTTTCATTGCGTTTAAACCATCGATTCCAAAAAGCTTGTTACTTGACGGGAAGCATACCATTGAATCGCATTTTATCCTCGTTAATCACCAA
     tgttaat  putative branch site (score: 3)
                      aaaatcaa  TA-rich tract