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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctacttatacgtatatatgaaatgtgtgtatatatatcctcatttgttaggatttagtgttactttccaatttggagacattt...

Basic information

species Arabidopsis thaliana
transcript AT5G02610.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os02g30050.1 (Oryza sativa), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctacttatacgtatatatgaaatgtgtgtatatatatcctcatttgttaggatttagtgttactttccaatttggagacattt
|| | || || ||| ||| | ||||| ||||||| || ||| | |||||||| ||||| || |||||||| ||||| ||||||||||||||||| ||||| | || || | || | | | | | | | | ||| | | || | ||| ||| ||
AGGCGGAGCTGCAGGCCCAGCTCAAGGACCTCAAGGCGGAGCTCTCCCTCCTCCGCGTCGCCAAGGTCACCGGCGGCGCCCCCAACAAGCTCTCCAAGATgtacgcgcttcgcgctcgcgctcgcgctcat-tctctcctctttctgtgtgcccttgtgattgattgaatctc-tgtggttttgcag-------------

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os04g30730.1 (Oryza sativa), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctacttatacgtatatatgaaatgtgtgtatatatatc-ctcatttgttaggatttagtgttactttccaatttggagacattt
|| | || || ||| ||| | ||||| ||||||| || ||| | |||||||| ||||| || |||||||| ||||| ||||||||||||||||| |||| | || | | || || || | || ||||| | || || |||| ||| | ||| | || || | ||
AGGCGGAGCTGCAGGCCCAGCTCAAGGACCTCAAGGCGGAGCTCTCCCTCCTCCGCGTCGCCAAGGTCACCGGCGGCGCCCCCAACAAGCTCTCCAAGATgtgcgcctccttcct-ccttctctctcgctcgtttgttg-gtgtggctggatctcgctcacgggttct--tggggtggtgaattttttttcgcag------

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os06g51530.1 (Oryza sativa), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtctttta---tatatctacttatacgtatatatgaaatgtgtgtatatatatc---ctcatttgttaggatttagtgttactttccaatttggagacattt
|| | || || ||| ||| | ||||| ||||||| |||||| | ||||||| ||||| | |||||||| ||||| ||||||||||||||||| ||||| | ||| | | || | | | | | | || || | | | ||| || | | || | ||| || | |||| ||
AGGCGGAGCTGCAGGCCCAGCTCAAGGACCTCAAGGCGGAACTCTCCGTCCTCCGCGTCGCCAGGGTCACCGGCGGCGCCCCCAACAAGCTCTCCAATATgtacgcgctttgttctctctcaatctctctatctctgtgtgccttgcgattcgaaatcgaactgaagcgaatcgaatctgtggggggtttcgttttgcag------

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G010599_T02 (Zea mays), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctac------ttatacgtatatatga-aatgtgtgtatatatatcctcatttgttaggatttagtgttactttccaatttggagacattt
|||| ||||| || ||| | ||||| | || | || ||| | ||||| || ||||| || |||||||| || ||||||||||||||||||||||||| | || || | | | | | | | | | | | || | | || | | | | | | || || | ||| ||
AGACGGATCTGCAAGCGCAGCTCAAGGAGCTTAAATCGGAGCTCTCCCTCCTACGCGTCGCCAAGGTCACCGGCGGGGCTCCCAACAAGCTCTCCAAAATgtgcctgcttgatggctttgccgcccttcttcctcgtttgtcatactggctttgcatcgagctgaaccgaatcgtggatc-cgtggtttcctctcttgcag------

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G010599_T03 (Zea mays), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctac------ttatacgtatatatga-aatgtgtgtatatatatcctcatttg-ttaggatttagtgttactttccaatttggagacattt
|||| ||||| || ||| | ||||| | || | || ||| | ||||| || ||||| || |||||||| || ||||||||||||||||||||||||| | || || | | | | | | | | | | | || | | || | | | | | | ||| | || | | |
AGACGGATCTGCAAGCGCAGCTCAAGGAGCTTAAATCGGAGCTCTCCCTCCTACGCGTCGCCAAGGTCACCGGCGGGGCTCCCAACAAGCTCTCCAAAATgtgcctgcttgatggctttgccgcccttcttcctcgtttgtcatactggctttgcatcgagctgaaccgaatcgtggatccgtggtttcctctcttgcagcaag----

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G043279_T02 (Zea mays), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctacttatacgtatatatgaaatgtgtgtatatatatcctcatttgttaggatttagtgttactttccaatttggagacattt
|||| || || ||| ||| | ||||| | ||| |||| ||| | |||||||| || || || |||||||| ||||| ||||||||||||||||| |||| || | || |||| || | | | ||| || | | | || || | ||| | | | | || | |
AGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAAGGTCACCGGCGGCGCACCCAACAAGCTCTCCAAGATgtgcgtacctgcaatctctattttctcctgt-tattctctgctcctgaactcgactgaatcgattcgaattgtatccggcccttc--ttcagcaag----

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G043279_T03 (Zea mays), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctacttatacgtatatatgaaatgtgtgtatatatatcctcatttgttaggatttagtgttactttccaatttggagacattt
|||| || || ||| ||| | ||||| | ||| |||| ||| | |||||||| || || || |||||||| ||||| ||||||||||||||||| |||| || | || |||| || | | | ||| || | | | || || | ||| | | | | || |
AGACGGACCTGCAGGCGCAGCTCAAGGAGCTGAAGTCTGAGCTCTCCCTCCTCCGCGTAGCCAAGGTCACCGGCGGCGCACCCAACAAGCTCTCCAAGATgtgcgtacctgcaatctctattttctcctgt-tattctctgctcctgaactcgactgaatcgattcgaattgtatccggcccttc--ttcag--------

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ18648 (Selaginella moellendorffii), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctacttatacgtatatatgaaatgtgtgtatat-atatcctcatttgttaggatttagtgttactttccaatttggagacattt
|| ||| | | ||| | ||||| |||| | || |||||| | || || || || |||||||| |||||||| |||||||||||||||||||||| | ||| | | || | | | | | || | | | || ||
AGCAGGATTTGCTCGTCCAGCTCAAGGAGCTCAAATCCGAGCTCGCTTTGCTGCGCGTGGCCAAAGTCACTGGAGGCGCCCCCAACAAGCTCTCCAAAATgtgagattttcgagtgttccctcgcgattttgattttcacttcggtgttttgtttctccag----------------------------------------

upper sequence: AT5G02610.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: EFJ36167 (Selaginella moellendorffii), 5'ss of exon 2
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctacttatacgtatatatgaaatgtgtgtatat-atatcctcatttgttaggatttagtgttactttccaatttggagacattt
|| || | | ||| | ||||| |||| | || |||||| | || || || || |||||||| |||||||| |||||||||||||||||||||| | ||| | | || | | | | | | || | | | || ||
AGCAGGACTTGCTCGTCCAGCTCAAGGAGCTCAAATCCGAGCTCGCTTTGCTGCGCGTGGCCAAAGTCACTGGAGGCGCCCCCAACAAGCTCTCCAAAATgtgagattttcgagtgttccctcacgattttgattttcacttcggtgtttcgtttctccag----------------------------------------

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|116410831|gb|EG453423.1|EG453423
EST:     CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGT
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGT
EST: gi|116437117|gb|EG479709.1|EG479709
EST:     TCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
genomic: TCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|164077444|gb|ES015348.1|ES015348
EST:     CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATC
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATC
EST: gi|86026238|gb|DR321991.1|DR321991
EST:     CTCCGTGTCGCTAAAGTCACCGGARGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026240|gb|DR321993.1|DR321993
EST:     CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026246|gb|DR321999.1|DR321999
EST:     CTCCGTGTCGCTAAAGTCACCGGA-GCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|116458642|gb|EG501234.1|EG501234
EST:     CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026245|gb|DR321998.1|DR321998
EST:     CTCCGTGTCGCTAAAGTCACCGGA-GCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026239|gb|DR321992.1|DR321992
EST:     CTCCGTGTCGCTAAAGTCACCGGAG-CGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026249|gb|DR322002.1|DR322002
EST:     CTCCGTGTCGCTNAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|125027324|gb|EL099593.1|EL099593
EST:     AACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
genomic: AACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026244|gb|DR321997.1|DR321997
EST:     CTCCGTGTCGCTNAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|116467333|gb|EG509925.1|EG509925
EST:     CGGAGGCGCTCCCAACAAGCTTTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
genomic: CGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026250|gb|DR322003.1|DR322003
EST:     CTCCGTGTCGCTAAAGTCACCGGA-GCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|116467337|gb|EG509929.1|EG509929
EST:     CGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
genomic: CGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026247|gb|DR322000.1|DR322000
EST:     CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026241|gb|DR321994.1|DR321994
EST:     CTCCGTGTCGCTAAAGTCACCGGAG-CGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|116434671|gb|EG477263.1|EG477263
EST:     CGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
genomic: CGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|116437094|gb|EG479686.1|EG479686
EST:     TCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
genomic: TCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026248|gb|DR322001.1|DR322001
EST:     CTCCGTGTCGCTAAAGTCACCGGA-GCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026243|gb|DR321996.1|DR321996
EST:     CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA
EST: gi|86026242|gb|DR321995.1|DR321995
EST:     CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAAT                         CAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCTCAGAA
genomic: CTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttt ... tgatatccagCAAGGTTGTGAGGAAATCCATTGCTCAGGTGTTGACAGTGATCTCCCAGAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGACCGATCTTCAGAATCAGTTGAAGGAATTCAAGGCTGAACTCGCTCTCCTCCGTGTCGCTAAAGTCACCGGAGGCGCTCCCAACAAGCTCTCCAAAATgtatgtcttttatatatctacttatacgtatatatgaaatgtgtgtatatatatcctcatttgttaggatttagtgttactttccaatttggagacattt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT