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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatataatatacctcttgactttgtatagttacctccattaaacagacattatttggctccttttctaatctcttaacctgagaatgactccagtttgatccactttttttcatccagGGGGCAAAAGATGAGTTTACTCTTGATCTTGTCGAGCAATGTTCGTTTCAGAAAGAGCGCGTAATGCACCTCGTCATGACATCGAG

Basic information

species Arabidopsis thaliana
transcript AT5G63640.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G63640.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM5G834205_T01 (Zea mays), 3'ss of exon 6
gtatataatatacctcttgactttgtatagttacctccattaaacagacattatttggctccttttctaatct-cttaacctgagaatgactccagtttgatccactttttttcatccagGGGGCAAAAGATGAGTTTACTCTTGATCTTGTCGAGCAATGTTCGTTTCAGAAAGAGCGCGTAATGCACCTCGTCATGACATCGAG
                ||  |||  |  | ||   | ||     |    ||  | | |||   |  ||||  | |||   ||    || |||   |    | |    | || |  |  |||| ||||  ||||| |||    | |||||||||||||||||| ||||||||||  | ||  |||||||||| || |||||||| ||
---------------ttttgcttgttggatttttttgcacctctc---tatcctcttgctgtgtagctaaaatgcttttactctttataacttatgccctagcgctgtgttcttgt--agGGAGCAACGGATGAATTTGTGTTGGATCTTGTCGAGCAATGTACGTTTCAGAAGCAACGAATAATGCACCTTGTTATGACATCAAG

upper sequence: AT5G63640.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G135568_T01 (Zea mays), 3'ss of exon 6
------------------------------gtatata-atatacctcttgactttgtatagttacctccattaaacag------acattatttggctccttttctaatctcttaacctgagaatgactccagtttgatccactttttttcatccagGGGGCAAAAGATGAGTTTACTCTTGATCTTGTCGAGCAATGTTCGTTTCAGAAAGAGCGCGTAATGCACCTCGTCATGACATCGAG
                               |||||   ||| | |||  |||| |  || ||       | |  ||       ||  | ||    |  |     ||   |||   ||  | || |||   |    |      | | ||| | ||||| ||||  ||||| |||    | |||||||||||||||||| ||||||||||  | ||  | |||||||| || |||||||| ||
gtatgtgttaaactaatatccacatcatcaatatatctgtatccttctctacttcgattacttgttgaattgatgcatctctgtaccctcttgcatttgtagctaaaatgcttttactatgtataacttatgccctagtg--ctgtgttcttgcagGGAGCAACGGATGAATTTGTGTTGGATCTTGTCGAGCAATGTACGTTTCAGAAGCAACGGATGATGCACCTTGTTATGACATCAAG
















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|116410607|gb|EG453199.1|EG453199
EST:     TAGAAATTTTGAAGGAAGTGCTTGACGCAGTCGATTCTCAAAATCCTGAG                         GGGGCAAAAGATGAGTTTACTCTTGATCTTGTCGAGCAATGTTCGTTTCAG
genomic: TAGAAATTTTGAAGGAAGTGCTTGACGCAGTCGATTCTCAAAATCCTGAGgtatataata ... tttcatccagGGGGCAAAAGATGAGTTTACTCTTGATCTTGTCGAGCAATGTTCGTTTCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaatctcttaacctgagaatgactccagtttgatccactttttttcatccagGGGGCAAAAGATGAGTTTACTCTTGATCTTGTCGAGCAATGTTCGTTTCAGAAAGAGCGCGTAATGCACCTCGTCATGACATCGAG
                                    tccactttttttcatc  CT-rich tract
                                         tttttttcat  TA-rich tract