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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGTTTCAGTGGATAAGTATCTTCAGCTACAAGATTCTGTTCCTTGTAAAATCAGAGCCAAACGTGGTTGCGCTACACATCCTCGAAGCATCGCTGAACGGgtaacttcacctagttaaggccatctttacatatatcaatggaagtccatttgaagcagaatctagtttgttttcagaaagcctttcctaagaaatcttgtcaattgtgtcag

Basic information

species Arabidopsis thaliana
transcript AT2G42280.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G42280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G29830.1 (Glycine max), 5'ss of exon 4
GGTTTCAGTGGATAAGTATCTTCAGCTACAAGATTCTGTTCCTTGTAAAATCAGAGCCAAACGTGGTTGCGCTACACATCCTCGAAGCATCGCTGAACGGgtaacttcacctagttaaggccatctttacatatatcaatggaagtccatttgaagcagaatctagtttgttttcagaaagcctttcctaagaaatcttgtcaattgtgtcag-
| || |  |||| ||||  |||||| | |  |||||||||||||||||||||||||| || || || || ||||| |||||||||||||| |||||| |||||   |       |||        ||||  |  || |  | | || |     | |   ||   ||||| || |      | ||   |  | |||| ||   |  | ||| |  
GATTACTATGGAGAAGTTGCTTCAGTTCCCTGATTCTGTTCCTTGTAAAATCAGAGCAAAGCGAGGCTGTGCTACTCATCCTCGAAGCATTGCTGAAAGGgtaggattttgcctttagaa-----tttaattgaatta--gaatgttctgacaatgttaaa---agttttttatactgttgtctaatc--ataaatttt--tatgtatgttaaa

upper sequence: AT2G42280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G12150.1 (Glycine max), 5'ss of exon 4
GGTTTCAGTGGATAAGTATCTTCAGCTACAAGATTCTGTTCCTTGTAAAATCAGAGCCAAACGTGGTTGCGCTACACATCCTCGAAGCATCGCTGAACGGgtaacttcacctagttaaggccatctttacatatatcaatggaagtccatttgaagcagaatctagtttgttttcagaaagcctttcctaagaaatcttgtcaattgtgtcag
| || |  || | ||||  |||||| | |  |||||||||||||||||||||||||| || || || || ||||| |||||||||||||| |||||  |||||   |    |  |||        ||||     ||  ||  |      | ||||   |     ||||| | | | |  | |   || |||  | | || |  ||  |   | 
GATTACTATGAAGAAGTTGCTTCAGTTCCCTGATTCTGTTCCTTGTAAAATCAGAGCAAAGCGAGGCTGTGCTACTCATCCTCGAAGCATTGCTGAGAGGgtagaattttgtctttagaa-----ttta-----attgatttagaatgttctgaaaatgttaaaagtttttatactgtcatctaatcataa--atttttatgtatgataaaa-

upper sequence: AT2G42280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA19G32600.2 (Glycine max), 5'ss of exon 3
GGTTTCAGTGGATAAGTATCTTCAGCTACAAGATTCTGTTCCTTGTAAAATCAGAGCCAAACGTGGTTGCGCTACACATCCTCGAAGCATCGCTGAACGGgtaacttcacctagttaaggccatctttacatatatcaatgg--aagtccatttgaagca--gaatctagtttgttttca----gaaagcctttcctaagaaatcttgtcaat---tgtgtcag----------------------------------------------------------------
| || |  ||||||  |  |||||| |   ||||||||||||||||||||||||||| ||  | || |  |||||||||||||||||||| || ||| ||| || |  |  || | |   | || |||    | |   ||    |    ||||||   ||  ||| || |||  |  | |     ||  |   | |||    |  | ||| ||   | || ||                                                                 
GTTTGCTATGGATAGTTTGCTTCAGTTTTCAGATTCTGTTCCTTGTAAAATCAGAGCTAAGAGAGGCTTTGCTACACATCCTCGAAGCATTGCCGAAAGGgcaagtagatata-taatacctatatttgtcaaaacttatttttacaaacatttggtacaatgaagct-gttaatactaaaatgaaatactactactatagtacatagtccatgcctttgccaaaactatgagaaatggatgattatttctaattcatggactaattttaagagattatcgttttcag

upper sequence: AT2G42280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA03G29750.1 (Glycine max), 5'ss of exon 3
GGTTTCAGTGGATAAGTATCTTCAGCTACAAGATTCTGTTCCTTGTAAAATCAGAGCCAAACGTGGTTGCGCTACACATCCTCGAAGCATCGCTGAACGGgtaacttcacctagttaaggccatctttacatatat-caatggaagtccatttgaagcagaatctagtttgttttcagaaagcctttcctaagaaatcttgtcaattgtgtcag
| || |  ||||||| |  |||||| |   ||||||||||||||||||||||||||| ||  | || |  ||||| |||||||||||||| || ||| ||||||   |  |  |||     | |  | | ||||||  |||  |  |          |||| |||  ||  || |   |||   | |   |   |   ||| |||         
GTTTGCTATGGATAATTTGCTTCAGTTCTCAGATTCTGTTCCTTGTAAAATCAGAGCAAAGAGAGGCTTTGCTACTCATCCTCGAAGCATTGCCGAAAGGgtaaggac-tcaggtt----tccttgtaaaatatatataatctatattttccaatctcagattctgtttccttgt---aaaatatatataatctatatttgccaaaac------

upper sequence: AT2G42280.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0007g07810.t01 (Vitis vinifera), 5'ss of exon 3
GGTTTCAGTGGATAAGTATCTTCAGCTACAAGATTCTGTTCCTTGTAAAATCAGAGCCAAACGTGGTTGCGCTACACATCCTCGAAGCATCGCTGAACGGgtaacttcacctagttaaggccatctttacatatatcaatggaagtccatttgaagcagaatctagtttgttttcagaaagcctttcctaagaa--atcttgtcaattgtgtcag------
|| | |  |||| ||||  |||||| | ||||| |||||||||||||| ||  | || || || ||||| ||||| |||||  |||||||||||||| |||||| ||   |    | |    ||||||     |    |||| |  | | ||  | |  | |  |    ||   |  ||| |   |  |    |  |||||      ||||| |       
GGCTGCCATGGAGAAGTTCCTTCAGTTCCAAGACTCTGTTCCTTGTAAGATTCGTGCAAAGCGGGGTTGTGCTACTCATCCAAGAAGCATCGCTGAAAGGgtaaattagtcatagtcaccttatctttgttccttaggatggtacacaaattttaactcactggaaccagtgacctcaaatcaaatgttggagatgatctttaggggtgtgttattttcag

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|19743192|gb|AU228545.1|AU228545
EST:     TCAGACCCAAACGTGGTTTCGCTACACATCCTCGAAGCATCGCTGAACGG                         GTAAGAAGAAGCGCGGATAAGCGAGCGAATGAGGAAGTTACAAGAGCTTGT
genomic: TCAGAGCCAAACGTGGTTGCGCTACACATCCTCGAAGCATCGCTGAACGGgtaacttcac ... attgtgtcagGTAAGAAGAA-CGCGGATAAGCGAGCGAATGAGGAAGTTACAAGAGCTTGT
EST: gi|124957740|gb|EL032541.1|EL032541
EST:     ATCCTCGAAGCATCGCTGAACGG                         GTAAGAAGAACGCGGATAAGCGAGCGAATGAGGAAGTTACAAGAGCTTGTT
genomic: ATCCTCGAAGCATCGCTGAACGGgtaacttcac ... attgtgtcagGTAAGAAGAACGCGGATAAGCGAGCGAATGAGGAAGTTACAAGAGCTTGTT