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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgaattcccagtgactctaattgctcatttcttcgatttctctagagtctgtgctcattcttcaattgtaaattgttttgtgtgggtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTTGCACCGATGCCTCAAAAG

Basic information

species Arabidopsis thaliana
transcript AT1G21600.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G21600.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM5G829928_T02 (Zea mays), 3'ss of exon 1
gtgtgtgaattcccagtgactctaattgc-tcatttcttcgatttctctagagtctgtgctcattcttcaa-ttgtaaattgttttgtgtgggtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTTGCACCGATGCCTCAAAAG
 ||   |   | | |   |   |||   | |||  | | |   |  |||        ||        |||  |||   |        | |  | | |  ||||||||||| || || ||||| || || || ||||| |||||||| |||||||| |||||||| || |||
-tgctggcgatgctacccagattaacaacatcacatgtacatgtcttctgactcaattgtgtggcgctcatcttgctgagcacggcatttctgcg-caacagATGTATGTCACGCCACCGGACACCGACATCTACTCCATTCCGAGGGTTCTTGCCCCGATGCCGCAGAAG

upper sequence: AT1G21600.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA04G09200.1 (Glycine max), 3'ss of exon 1
gtgtgtgaattcccagtgactctaattgctcatttcttcgatttctctagagt-ctgtgctcattcttcaattgtaaattgttt--tgtgtgggtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTTGCACCGATGCCTCAAAAG
  || |  |  || | | |  | |       | | | |  ||  ||||    | || || |||   ||  |  ||  | | ||   | | ||   |   | ||||||||||||||||||||||||||||| |||| |||||||| |  ||||| || || ||||| || |||
--gtttctaaccctaataataccacgcttcgaatccatgcatacctcttcttttctttgttcaacttttcaccgttgagttttgaatctttgttcgttcgtagATGTATGTTACTCCTCCGGATACAGATGTTTATTCAATTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG

upper sequence: AT1G21600.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G12370.1 (Glycine max), 3'ss of exon 1
gtgtgtgaattcccagtgactctaattgctcatttcttcgatttctctagagtctgtgctcattcttcaattgtaaattgttttgtgtgggtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTTGCACCGATGCCTCAAAAG
          | | |   |||   |||    |  |||||   |||| |   ||   || |||   ||  |  ||    ||  |||  |   ||   | ||||||||||||||||||| ||||||||| |||| ||| |||| |  ||||| || || ||||| || |||
---------gttctac--acttcgatt--ctacctcttcttcttcttttttgttgttgttcaacttttcaccgt----tgagttgaatctttgttcgtagATGTATGTTACTCCTCCAGATACAGATGTTTATTCAGTTCCCAAGGTTCTCGCTCCAATGCCGCAGAAG

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|124733882|gb|EH825284.1|EH825284
EST:     ATAATGATGTTTATGATTTCAGAGAG                         ATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTT
genomic: ATAATGATGTTTATGATTTCAGAGAGgtgtgtgaat ... gtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTT
EST: gi|124984293|gb|EL056959.1|EL056959
EST:     AAACCTCCTGATCCAGATAATGATGTTTATGATTTCAGAGAG                         ATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTT
genomic: AAACCTCCTGATCCAGATAATGATGTTTATGATTTCAGAGAGgtgtgtgaat ... gtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTT
EST: gi|125280730|gb|EL294815.1|EL294815
EST:     TTTATGATTTCAGAGAG                         ATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTT
genomic: TTTATGATTTCAGAGAGgtgtgtgaat ... gtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctagagtctgtgctcattcttcaattgtaaattgttttgtgtgggtggctgcagATGTATGTTACTCCTCCGGATACAGATATTTACTCAATTCCGAGAGTTCTTGCACCGATGCCTCAAAAG
                       aattgtaaattgtttt  TA-rich tract