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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagaggggtactcactatggtttatgggacatgtatggcccagagtctgaaagtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT

Basic information

species Arabidopsis thaliana
transcript AT1G57720.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os06g37440.1 (Oryza sativa), 3'ss of exon 7
ttagaggggtactcactatggtttatgggacatgtatggcccagagtctgaa--agtacattctattaagctcaa--tgccttgaatgtttt----tcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
         | ||   ||   |||  |  | || | | | |  ||   | |   | | |||| | ||    |  |  |  |    |  || |    |||   || |||| |||||||||||||||||||| ||||| ||||| || |||||||||||||| |||||||||||||||||||  || || ||||| ||  | ||||||||
--------cttcttgttacaattttagcaatatatttaggcatgaacttaatttattccattttcttgtttttgaattaacagagacattatcacgtctatttttcagGTTTCTGGGACATGTATGACCCAGAGGGTTACTCTCTGTGGTTCTGTGACTACAAGTACAACGATGAGAACACCGTATCGTTTGTGACGATGAACAAGGT

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g12800.1 (Oryza sativa), 3'ss of exon 7
ttagaggggtactcactatggtttatgggacatgtatggcccagagtctga-aagtacattctattaagctcaatgccttga--atgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
||||     |  ||   |   || ||    ||| ||    |||   ||||   |||     ||  |  |     | |       || || |  |  |||||||| |||||||| ||||||||||| || || ||||| || |||||||| ||||| || ||||| ||||||||||  || ||||| || ||  | ||||||||
ttagttctctcttctacaccatt-atttctcatctaca--ccaacttctgttgagtttgaactgctgtgaattgtactcaagttatcttctcatgtattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTCTGCGACTACAAATACAATGATGAGAACACCGTGTCCTTCGTGACCATGAACAAGGT

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g12794.3 (Oryza sativa), 3'ss of exon 6
--ttagaggggtactcactatggtttatgggacatgtatggcccagagtctgaaagtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
   ||      |  | || ||  ||| |             |      | || | | |  |||| | ||  | ||  |      | || |   | |||||||| |||||||| ||||||||||| || || ||||| || ||||| |||||||| || ||||| || |||||||  || ||||| || ||  | ||||||||
ttatatctctttgattaccattatttgtcatctgctcccaacttctgttgtgtatgaa-gttctgtgaa-ttgaactcaacatgtcttctcacttattgcagGTTTCTGGGATATGTATGACCCAGAAGGTTACTCCCTGTGGTTTTGTGACTACAAATACAATGACGAGAACACTGTGTCCTTCGTGACCATGAACAAGGT

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G059580_T03 (Zea mays), 3'ss of exon 5
ttagaggg-gtactcactatggtttatgggacatgtatggcccagagtctgaaagtacattctattaagctcaatgccttgaatg----tttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
  |||||| |||||   | |   |||     | || |||||   |  |       | | ||    |         | |||||       |   |||   || |||| |||||||||||||||||||| ||||| ||||| || |||||||||||||| |||||||| || |||||||  ||||||||||| || || ||||||||
--agagggagtactgcttgtaaattaattagc-tggatggcttgggtttcctt--tccttttccatgtttgtggagtcttgaccaataatccgtctatgtttcagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCTCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACCGTCTCCTTTGTGACCCTGAACAAGGT

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G122871_T02 (Zea mays), 3'ss of exon 6
ttagaggggtactcactatggttta--tgggacatgtatggcccagagtc----tgaaagtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
     || |||||         |||  ||  | ||| || ||   || |     |    || |||  |  |   |||    ||| | |  |   | |   || |||| |||||||||||||| ||||| ||||| |||||  | |||||||||||||| |||||||| ||||||||||  ||||||||||| || || ||||||||
-----ggcgtactgcaagcaaattaattgttagatgaattgcttggatttcctttccctgttcatgtttgtggactcttgacctagta-atccgtgtgtgtttcagGTTTCTGGGACATGTACGACCCAGAGGGCTACTCTTTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACCGTCTCCTTTGTGACCCTGAACAAGGT

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G029559_T02 (Zea mays), 3'ss of exon 7
ttagaggggtactc-actatg-gtttatgggacatgtatggcccagagtctgaaagtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
  |       || | | || | | || |   |  | | |     |     |   ||| |  |  |  |||   | ||   | ||      | |   || |||| |||||||||||||||||||| ||||| ||||| || |||||||||||||| |||||||| || |||||||  || || ||||| ||  | ||||||||
gcatttaaacaccccattaagcggttctcaaagttttgtttttgatctgttagtagtgctatgcac-aagtcaactgaactcaactcccatgtatttt-cagGTTTCTGGGACATGTATGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGACGAGAACACAGTGTCGTTTGTGACTATGAACAAGGT

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G134582_T01 (Zea mays), 3'ss of exon 7
-ttagaggggtactcactatggtttatgggacatgtatggcccagagtctgaa-agtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
 || |     |  |     || |||| |       || |        | | |  ||| || | ||  || |  | ||   | ||   | |  |  |||  ||| |||||||| ||||| ||||| ||||| ||||| || |||||||||||||| |||||||| ||||||||||  || || ||||| ||  | ||||||||
gtttggtatatctttttggtgttttaagcagttcctaagttttgatctgtcagtagtgcaatgtacgaa-ccaactgaactcaa-actctcatgtattttagGTTTCTGGGATATGTACGACCCAGAGGGCTACTCCCTGTGGTTCTGTGACTACAAGTACAATGATGAGAACACAGTGTCGTTTGTGACCATGAACAAGGT

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G122871_T03 (Zea mays), 3'ss of exon 6
----ttagaggggtactcactatggtt-tatggg-acatgtatggcccagagtctgaaagtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGG--ACATGTATGACCC-GGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
      |||||| |||||  | ||||| | ||   ||| |||       |||    |  ||    | | | |  || ||     |   ||  || || ||  | | |   ||| |   || ||| | |   ||   | | |||   || |        | |    |  | |     |  | | | ||| |  ||  |            
cgacccagagggctactctttgtggttctgtgactacaagtacaatgatgagaac-accgtctcctttgtgaccctgaacaaggttggtggattcctgcagCGGATGGACCTGTGCCGCAAGTACGCCTTTGGGAAGATGCTCGTGATAGGCTCTGAGCCACCCTTCAAGCTGAAGGGCCTTTGGCTCTTCCGTGGCCAGG--------

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ14564 (Selaginella moellendorffii), 3'ss of exon 6
ttagaggggtactcactatggtttatgggacatgtatggcccagagtctgaaagtacattctattaa--gctcaatgccttgaatgtttttct----tcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
                                             ||   |  |    ||| ||| |  |||  |        || ||  ||     || |||||||||||||||| ||||||||||| ||||| ||||| || |||||||| ||||| ||||||||||||||||||| |||  | || || ||  | ||||||||
---------------------------------------------gtacaagtggtgtttccattgatcgcttgaaaatgctgattttgatcccaaatctttgcagGATTCTGGGAGATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

upper sequence: AT1G57720.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ26267 (Selaginella moellendorffii), 3'ss of exon 5
ttagaggggtactcactatggtttatgggacatgtatggcccagagtctgaaagtacattctattaagctc-----aatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
                                             ||   |  |    ||| ||| | | |     |||||      || | |  | | |||||||||||||||||||||||||||| ||||| ||||| || |||||||| ||||| ||||||||||||||||||| |||  | || || ||  | ||||||||
---------------------------------------------gtacaagtggtgtttccattgatcgcttgaaaatgctgattctgatctcttcccttgcagGATTCTGGGACATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT

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|116439635|gb|EG482227.1|EG482227
EST:     GAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGAGGTACTCACTATGGTTCTGTGACT
genomic: GAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
EST: gi|125316649|gb|EL330734.1|EL330734
EST:     CCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
genomic: CCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
EST: gi|125254974|gb|EL269059.1|EL269059
EST:     CTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
genomic: CTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
EST: gi|124817969|gb|EH902835.1|EH902835
EST:     CTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
genomic: CTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
EST: gi|116439637|gb|EG482229.1|EG482229
EST:     GAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGAGGTACTCACTATGGTTCTGTGACT
genomic: GAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
EST: gi|125149875|gb|EL182820.1|EL182820
EST:     AGGCTTTACTCGAACACCAAATCCAACT-CCGTGAGGTTAGCTATCAAAG                         GATTCTGGGACATGTA
genomic: AGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTT-GCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTA
EST: gi|124818825|gb|EH903691.1|EH903691
EST:     GAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTTACTCACTATGGT
genomic: GAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGT-ACTCACTATGGT
EST: gi|125009067|gb|EL081336.1|EL081336
EST:     ACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTT
genomic: ACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTT
EST: gi|124717041|gb|EH808443.1|EH808443
EST:     AACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
genomic: AACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
EST: gi|163974517|gb|ES074627.1|ES074627
EST:     TCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
genomic: TCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
EST: gi|125185763|gb|EL200717.1|EL200717
EST:     TCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
genomic: TCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
EST: gi|47830537|gb|CK120221.1|CK120221
EST:     GAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAG                         GATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT
genomic: GAGGCTTTACTCGAACACCAAATCCAACTTCCGTGAGGTTGCTATCAAAGgtatgttata ... ttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctgaaagtacattctattaagctcaatgccttgaatgtttttcttcattgcagGATTCTGGGACATGTATGACCCGGAGGGGTACTCACTATGGTTCTGTGACTATAAGTACAACGATGAGAACATGGTCTCCTTTGTTACACTCAACAAGGT
                                     tgtttttcttcatt  CT-rich tract
            attctattaa  TA-rich tract