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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtaagctcgttactttatatactgttattattatagtttatcatgtctttagaattatattctggaaacctccttactctaccttttcccttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCA

Basic information

species Arabidopsis thaliana
transcript AT3G06670.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06670.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G37040.1 (Glycine max), 3'ss of exon 5
tgtaagctcgttactttatatactgttattatta-tagtttatcatgtctttagaattatattctggaaac-ctccttactctaccttttcccttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCA
    ||| |  | || |    |    || |     |    |  ||  | | |     || ||| |  | |  |  | |  |  |||  |     |  ||||||| || || || ||||| |||||||  || || | ||| || || |||||||||||| ||||||||||||||||||| ||||| || ||||| || ||  
--gcagccccctgctcttgtcatgtctaatgcagctgaaatggcacttttctgcttgtacattttatatatgcatcctttttcaccggtgtttatattgcagCAAGAGTTTTTTCGGAAGCTGATGGAAGTATTCAGAATGTGTGAAGACTTGGAAAATATTGATGGCCTTCACATGATTTTCAAAATAGTCAAAGGGATTG

upper sequence: AT3G06670.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G03570.1 (Glycine max), 3'ss of exon 7
-tgtaagctcgttactttatatactgttattattatagtttatcatgtctttagaattatattctggaaacctccttactctaccttttcccttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCA
    |  | | |    || |   ||  |||     | |  |  ||  | | |   | | |||| |     | |||||  || ||   |        ||||||| |  || || ||||| |||||||  || || | ||| || || |||||||||||| ||||||||||||||||||| ||||| || ||||| || ||  
tcacagtcccctgctcttgtcatctcctatgcagctggaatggcacttttctgctagtgtattttatgtgcatcctttttc-actggtctttaaattgcagCAAGCATTTTTTCGGAAGCTGATGGAAGTATTCAGAATGTGTGAAGACTTGGAAAATATTGATGGCCTTCACATGATTTTCAAAATAGTCAAAGGGATTG

upper sequence: AT3G06670.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G15270.1 (Glycine max), 3'ss of exon 6
tgtaagctcgt-tactttatatactgttattat-tatagtttatcatgtctttagaattatattctggaaacctccttactctaccttttcccttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCA
 ||| |   |  ||| ||| | | |   ||||| || | || ||| | | |||     | |||  |  | |  ||| |     |  |          ||||||| ||||| ||  |||| || |||| |||||||| | | || || |||||||||||| | ||||||||||||||||| | ||| || ||||| || ||||
-gtatgtcagagtaccttagaaattagaattatgtaaatttcatcct-tttttctccctgtatattttagatttccctttgtaatttacatttccaatgcagCAAGATTTTTTTGGGAAGCTCATGGATGTTTTTAGAGTTTGTGAAGACTTGGAAAATATGGATGGCCTTCACATGATTTACAAAATAGTCAAAGGGATCA

upper sequence: AT3G06670.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv05s0077g01200.t01 (Vitis vinifera), 3'ss of exon 7
-----------------------------------------------------------------tgtaagctcgtt--actttatatactgttattattatagtttatcatgtctttagaattatattctggaaacctccttactctaccttttcccttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCA
                                                                   ||| | | |   || |  | |  | || | ||| |    | | |   |||||| || ||  | ||      |  | |    |   ||    ||  ||||||| || || ||||  || |||||||   | ||||  |||||||| |||||||||||  | ||||||||||||||||||| ||| |||||||| || ||||
gtaagtttggatagatttcatgcatatgggcagatgcaaatatttggtcttgaaaataacaataaaataatcacatccaacctcttctgttcttgtcattgtgacgttttagccctttagtatcat--tgtgtctttttaatgataaaataattcatttttatgcagCAAGAATTTTTCCAAAAGCTGATGGACCTATTTAGGATATGCGAAGACTTGGAAAACATGGATGGCCTTCACATGATATACAAGATTGTCAAAGGGATCA

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|116447731|gb|EG490323.1|EG490323
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116411545|gb|EG454137.1|EG454137
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTG
EST: gi|116407356|gb|EG449948.1|EG449948
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116413313|gb|EG455905.1|EG455905
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGA-TCTGATGGGTGTTTTTAAA-TATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116444990|gb|EG487582.1|EG487582
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAA
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAA
EST: gi|116449085|gb|EG491677.1|EG491677
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CTTGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGA
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGA
EST: gi|116449109|gb|EG491701.1|EG491701
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116407371|gb|EG449963.1|EG449963
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116448708|gb|EG491300.1|EG491300
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116449103|gb|EG491695.1|EG491695
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
EST: gi|116434816|gb|EG477408.1|EG477408
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTT
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTT
EST: gi|116379504|gb|EG422096.1|EG422096
EST:     AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGAT                         CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG
genomic: AGAGTGGCATTACAGATCAGATGCGCCTAACTGAACTTATTTTGAAGGATgtgagtaatt ... cttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctttagaattatattctggaaacctccttactctaccttttcccttgctgcagCATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCA
                          tccttac  putative branch site (score: 2)
                        cctccttactctacct  CT-rich tract
     tagaattatattct  TA-rich tract