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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatccccttttggtctgtattgcagatttttggtattccttatgtatgtgagtatgtgacagtgaaacatgatttaactttctctcattgatctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGGCCAAAGGAGGTTCCTTGTACAGAAGAGTCTCCCCTGTCTGGAATGAGTCCTTATGGACGGACAA

Basic information

species Arabidopsis thaliana
transcript AT1G64440.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G43540.2 (Glycine max), 3'ss of exon 3
gtaaaatccccttttggtctgtattgcagatttttggtattccttatgtatgtgagtatgtgacagtgaaacatgatttaactt-tctctcattgatctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGGCCAAAGGAGGTTCCTTGTACAGAAGAGTCTCCCCTGTCTGGAATGAGTCCTTATGGACGGACAA
     | | ||||   || | |  || || ||  |  ||     ||    | |||   |           || | | | |  || | | | |||||      |||||| || ||||| || || || ||||| ||||| ||||||||||||||||| || ||||||||||  || ||||| | |||||  || |||||||| || |
-----aacaccttgaagtgtcttgtg-aggttgattataccttctacagctttgacgctccattcagctcacctcactgattttgtatttaattgaatgatttcagCTCGTGTTTTCATCTTCAGCAACTGTATATGGTTGGCCAAAGGAGGTTCCATGCACAGAAGAGTTCCCTCTGTCAGCAATGAACCCATATGGACGAACTA

upper sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G36850.1 (Glycine max), 3'ss of exon 3
-gtaaaatccccttttggtctgtattgcagatttttggtattccttatgtatgtgagtatgtgacagtgaaacatgatttaactttctctcattgatctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGGCCAAAGGAGGTTCCTTGTACAGAAGAGTCTCCCCTGTCTGGAATGAGTCCTTATGGACGGACAA
  |  ||    ||| |||  |   || |  |||  |  ||||  || |  |||     || |||   |  |||    ||||  ||||| | | |||| |||    |||||| || || || || || ||||| |||||||||||||||||||| || ||||| |||||||  ||  |||| | ||  |  || |||||||| || |
ttttgaagtgtcttgtggaattggttacgcattaattatatt--ttcttgatgctgcaatctgattatttaactgattttatatttctttgaatgatttca----gCTTGTGTTCTCATCTTCAGCAACTGTATATGGCTGGCCAAAGGAGGTCCCATGTACCGAAGAGTTCCCTTTGTCAGCAACAAACCCATATGGACGAACCA

upper sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 3
gtaaaatccccttttggtctgtattgcagatttt-tggtattcct-tatgtatgtgagtatgtgacagtgaaacatgatttaactttctctcattgatctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGGCCAAAGGAGGTTCCTTGTACAGAAGAGTCTCCCCTGTCTGGAATGAGTCCTTATGGACGGACAA
      |    |||| || | ||   |   | || || |||| || | | | ||  | | |||   | ||   |   | | |  | |   |  |  |  |   ||||||||| ||||| || || |||||||| ||||| ||||||||||||||||| |||||||||||||  || || | || ||  | ||| |||||||| || |
---tcctttattttttgtttttaccacgtttcttgtgatattactgtttatgtgcaactctgttctaatgt--ctccactgacttctaaattctcaacatt--tcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCACTATGTGCAACAAATCCATATGGACGAACTA

upper sequence: AT1G64440.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 3'ss of exon 3
gtaaaatccccttttggtctgtattgcagatttt-tggtattcct-tatgtatgtgagtatgtgacagtgaaacatgatttaactttctctcattgatctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGGCCAAAGGAGGTTCCTTGTACAGAAGAGTCTCCCCTGTCTGGAATGAGTCCTTATGGACGGACAA
   | || |     |  | | ||       | || || | || || | | ||||  | | |||   | ||   | | | | |  | |   |  |  || |   ||||||||| ||||| || || |||||||| ||||| ||||||||||||||||| |||||||||||||  || || | ||     | ||| |||||||| || |
---agatgcatgccttttttttagcatgtttcttgtgatgttactgtttatatgcaactctgttcaaatgt--cttcactgatttctaatttctcaatatt--tcagCTTGTTTTTTCATCATCAGCTACTGTTTATGGTTGGCCAAAGGAGGTTCCATGTACAGAAGAGTTCCCGCTATGTGCTGCAAATCCATATGGACGAACCA

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|86052923|gb|DR348680.1|DR348680
EST:     TTGCGACTATTACACTTTTGGAAGTAATGGCTGCACACGGATGTAAAAAG                         CTTGTATTTTCTTCGTCCGCTACTGTGTAT
genomic: TTGCGACTATTACACTTTTGGAAGTAATGGCTGCACACGGATGTAAAAAGgtaaaatccc ... tctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTAT
EST: gi|86052920|gb|DR348677.1|DR348677
EST:     TTGCGACTATTACACTTTTGGAAGTAATGGCTGCACACGGATGTAAAAAG                         CTTGTATTTTCTTCG
genomic: TTGCGACTATTACACTTTTGGAAGTAATGGCTGCACACGGATGTAAAAAGgtaaaatccc ... tctcaatcagCTTGTATTTTCTTCG
EST: gi|86052922|gb|DR348679.1|DR348679
EST:     TTGCGACTATTACACTTTTGGAAGTAATGGCTGCACACGGATGTAAAAAG                         CTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGG
genomic: TTGCGACTATTACACTTTTGGAAGTAATGGCTGCACACGGATGTAAAAAGgtaaaatccc ... tctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgagtatgtgacagtgaaacatgatttaactttctctcattgatctcaatcagCTTGTATTTTCTTCGTCCGCTACTGTGTATGGCTGGCCAAAGGAGGTTCCTTGTACAGAAGAGTCTCCCCTGTCTGGAATGAGTCCTTATGGACGGACAA
                         atttaacttt  TA-rich tract