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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaacgttacatgcttctggtttgcatttcacacacttctttttgtagctttggacctattggtctggtctttaagtattcagttaatgatcaagggtgataaaatattctttctttcctgtttgatttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTATGTATGACTATGTTGTCAAAGAGTTGCCAAAACTCCTGAGTGAAAACTT

Basic information

species Arabidopsis thaliana
transcript AT2G41530.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G41530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os01g71300.1 (Oryza sativa), 3'ss of exon 3
gtatgcaacgttacatgcttctggtttgcatttcacacacttctttttgtagctttggacctattggtctggtctttaagtattcagttaatgatcaagggtgataaaatattctttctttcctgtttgatttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTATGTATGACTATGTTGTCAAAGAGTTGCCAAAACTCCTGAGTGAAAACTT
                           | |||  |   |     |  | |||| |      || ||| ||   ||||  ||    | |  ||  |     ||| |    || | ||||| |  |          || |||| || ||||||||  | ||||| ||  | ||||||||||| || ||||| ||||||||||||||||| || ||| | |||||| |  | ||||| |||||
---------------------------gaattcaatgaatgaaatcatttagcatga----taatggactttcctttctgtg---aat--atagttggatgtgct----tactgtttctattttaaccatcaatgagtagGTGCTGGATTCTATTTGAATGCAACAAATGAAAAGTGGAAAAATTGGCGCATGTATGACTATGTTGTGAAGGAGCTTCCAAAAGTTTTAAGTGACAACTT

upper sequence: AT2G41530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA10G15910.1 (Glycine max), 3'ss of exon 3
gtatgcaacgttacatgcttctggtttgcatttcacacacttctttttgtagctttggacctattggtctggtctttaagtatt------cagttaatgatcaagggtgataaaatat-tctttctttcctgtttgatttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTATGTATGACTATGTTGTCAAAGAGTTGCCAAAACTCCTGAGTGAAAACTT
                                             || || | | | | | ||||   ||  | | | | ||||       | ||  | |  |  ||  ||  |  || |||   |||| | |    | | ||  ||| || ||||| || ||||||||||| || || || |||||||| ||||| |||||||||||||||||||| ||||||||||| || ||||| || || ||
---------------------------------------------ttagtggatattggcatattttact--tttctgaatatttctccataattggtaaatattggcaatttagcatatctgattttcatatacattctggaacagGTGCAGGATTTTATCTCAATGCTACACAAGAGAAATGGAAGAATTGGCGCATGTATGACTATGTTGTCAAGGAGTTGCCAAAGCTTCTGAGCGATAATTT

upper sequence: AT2G41530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G33350.1 (Glycine max), 3'ss of exon 3
gtatgcaacgttacatgcttctggtttgcatttcacacacttctttttgtagctttggacctattggtctggtctttaagtattcagttaatgatcaagggtgataaaatattctttctttcctgtttgatttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTATGTATGACTATGTTGTCAAAGAGTTGCCAAAACTCCTGAGTGAAAACTT
                             |||| |     |      | |||||  |    | |||   ||  |  || | |||   ||| | ||||        || |||| |||  || | | |    | | ||  ||| || ||||| || |||||||| || || || || |||||||| ||||| |||||||||||||||||||| ||||||||||| || |||||||| || ||
----------------------------aattttaattgttatgggctatagctaagagaat-ttgagatgtgcagtatgcatt---ttacttatcag-------aagatat-cttatttgcatatacattctggagcagGTGCAGGATTTTATCTCAATGCCACACAAGAGAAATGGAAGAATTGGCGCATGTATGACTATGTTGTCAAGGAGTTGCCAAAGCTTCTGAGTGATAATTT

upper sequence: AT2G41530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv08s0007g09010.t01 (Vitis vinifera), 3'ss of exon 3
gtatgcaacgttacatgcttctggtttgcatttcacacacttctttttgtagctttggacctattggtctggtctttaagtattcagttaatgatcaagggtgataaaatattctttctttcctgtttgatttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTATGTATGACTATGTTGTCAAAGAGTTGCCAAAACTCCTGAGTGAAAACTT
                                     ||| | |    |||||  || ||  |  | | ||||    |   |    ||| | | | | || |  ||||||   ||   |||   ||||  |||| || ||| || ||||| || || ||||| || || || ||||||||||| ||||  |||||||||||||||||||| || ||||| ||| | ||||||||||| ||
------------------------------------gcacctatgaa-gtagcagtgcacacaa-gctttggttggaagtgaacttgtttaaggt-atggcttttaaaatgcactcagttttacgtttt-tttcaaccagGTGCTGGATTTTATCTTAATGCCACACAAGAGAAGTGGAAGAATTGGCAGATGTATGACTATGTTGTCAAGGAATTGCCCAAAGTTCTGAGTGAAAATTT

upper sequence: AT2G41530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: EFJ22464 (Selaginella moellendorffii), 3'ss of exon 3
gtatgcaacgttacatgcttctggtttgcatttcacacacttctttttgtagctttggacctattggtctggtctttaagtattcagttaatgatcaagggtgataaaatattctttctttcctgtttgatttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTATGTATGACTATGTTGTCAAAGAGTTGCCAAAACTCCTGAGTGAAAACTT
                                                                  |  || | |||      |  |  ||  | ||| ||   |    ||||     ||| || |||  | ||    ||| ||||| || || |||||||| ||||| ||||||||||| || ||||| |||||||||||      ||| ||| | ||| ||||||| ||    |  ||
----------------------------------------------------------------gcgagtgatttttg----cttcgcaaa--aacaatggccttggtttatttggctttttcttttttttctc----agGTGCCGGTTTTTATCTCAATGCAACTCAAGAAAAGTGGAAAAAGTGGCGAATGTATGACTACTGCACCAAGGAGCTCCCAGAACTCCTCAGCTCCAGTTT

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|86046999|gb|DR342754.1|DR342754
EST:     GAGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAG                         GAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTA
genomic: GAGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAGgtatgcaacg ... tttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTA
EST: gi|124913162|gb|EH987036.1|EH987036
EST:     AAGAGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAG                         GAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTA
genomic: AAGAGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAGgtatgcaacg ... tttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTA
EST: gi|125304012|gb|EL318097.1|EL318097
EST:     AGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAG                         GAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTA
genomic: AGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAGgtatgcaacg ... tttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTA
EST: gi|86046998|gb|DR342753.1|DR342753
EST:     GAGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAG                         GAGCCGGATTCTACCTCA
genomic: GAGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAGgtatgcaacg ... tttcgactagGAGCCGGATTCTACCTCA
EST: gi|124904215|gb|EH978295.1|EH978295
EST:     AGAGGACTAAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAG                         GAGCCGGATTCTACCTCAA
genomic: AGAGGACT-AAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAGgtatgcaacg ... tttcgactagGAGCCGGATTCTACCTCAA
EST: gi|86046997|gb|DR342752.1|DR342752
EST:     GAGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAG                         GAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTA
genomic: GAGGACTAAATGTTGAAGGGGAGGCAGACAGTTACGACTTTGGTGTAGgtatgcaacg ... tttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttaatgatcaagggtgataaaatattctttctttcctgtttgatttcgactagGAGCCGGATTCTACCTCAATGCTACTCAGGAAAAGTGGAAGAACTGGCGTATGTATGACTATGTTGTCAAAGAGTTGCCAAAACTCCTGAGTGAAAACTT
                          ttctttctttcctgtt  CT-rich tract
                  ataaaatattctttct  TA-rich tract