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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttctcaaaaatccaaacttttttttttctgttttttgagtttgaaattttctgtttttagttgttctcactgattgtctaaattcagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGAATCGATTCGTTTGCGAAATCTGTAACAAAGGTTTTCAACGTGACCAGAA

Basic information

species Arabidopsis thaliana
transcript AT5G66730.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G66730.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv18s0001g12220.t01 (Vitis vinifera), 3'ss of exon 1
gtacttctcaaaaatccaaacttttttttttctgttttttgagtttgaaattttctgtttttagttgttctcactgatt---gtctaaatt---cagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGAATCGATTCGTTTGCGAAATCTGTAACAAAGGTTTTCAACGTGACCAGAA
|||       |||| || || ||   | |   | ||   | | ||       | |   |   |   |     || |  |   || |  |||   ||||||| || || || ||||| ||||||||||| ||||| || ||||||||||| || ||||| ||||| ||||| |||||||| || ||||| ||||||||
gtaagataagaaaaccctaaattcaatgtaaatcttaggtaaattctttccctcccaatacgaagagagaagaccgtgttgtgtttggattttgcagATCCGGATGCGGAGGTGATCGCTTTGTCACCCAAAACCCTAATGGCAACGAACCGGTTCGTCTGCGAGATCTGCAACAAAGGGTTCCAACGCGACCAGAA

upper sequence: AT5G66730.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S43_228V6.1 (Physcomitrella patens), 3'ss of exon 1
--------------gtacttctcaaaaatccaaacttttttttttctgttttttgagtttgaaattttctgttt-ttagttgttctcactgattgtctaaattcagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGAATCGATTCGTTTGCGAAATCTGTAACAAAGGTTTTCAACGTGACCAGAA
                  || |  |   ||   |  |    | || | |     |  ||||  |  ||   | |   |   ||  |   ||||||| ||    |||| || || ||||| |||||||| |||||||| || ||| | |||||||||||||||||||| |||||||| |||||||| || ||||| || || || ||
acttctctccgtcatggttttttgagggtcgcgagatcagatgttgtata----ggatttgtgaggttaaatatgccaacggtgttagatgattgtatacg--cagACCCGGAAGCTGAGGTGATAGCGTTGTCACCAAAGACATTGATGGCAACGAATCGATTCGTGTGCGAAATTTGTAACAAGGGGTTTCAGCGAGATCAAAA

upper sequence: AT5G66730.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S165_3V6.1 (Physcomitrella patens), 3'ss of exon 2
-------gtacttctcaaaaatccaaactt---ttttttttctgttttttgagtttgaaattttctgtttttagttgttctcactgattgtctaaattcagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGAATCGATTCGTTTGCGAAATCTGTAACAAAGGTTTTCAACGTGACCAGAA
           |||| |||      | |||   | || | |    ||| ||   |    | ||     |   |   || ||   ||||| |  | |  |||| || || || || ||||| || |||||||| |||||| | ||||| |||||||||||||| |||||||| |||||||| |||||||| || ||||| ||
tggtcataagattctgaaagtcgtgagcttggatcttgtgtaaagtttgtggagtgatgagttcaatctggcaaccgtactggatgatt-tgaatacgcagACCCGGAAGCCGAGGTGATCGCGTTGTCACCAAAAACATTGATGGCCACGAATCGATTCGTGTGCGAAATTTGTAACAAGGGTTTTCAGCGCGACCAAAA

upper sequence: AT5G66730.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S63_51V6.1 (Physcomitrella patens), 3'ss of exon 1
----------gtacttctcaaaaatccaaacttttttttttctgttttttgagtttgaaattttctgtttttagttgttctcactgattgtctaaattc--agATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGAATCGATTCGTTTGCGAAATCTGTAACAAAGGTTTTCAACGTGACCAGAA
              ||| |     ||   | |||||   |   |||    || | ||||  |      ||  || ||    |  |  | |  | ||| |  ||| || || || || ||||||||||| ||||| || ||| | ||||| |||||||||||||| |||||||| |||||||| || ||||| || || || ||
tttactccctcctgttccctttggtcagtaatttttaaatgtcgttagcggactgtgaagatg---agttcaaggtgccaacgatattggatttaatacgcagACCCGGAAGCCGAGGTGATAGCTTTATCACCAAAGACATTGATGGCCACGAATCGATTCGTGTGCGAAATTTGTAACAAGGGGTTTCAGCGAGATCAAAA

upper sequence: AT5G66730.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: PP1S125_69V6.1 (Physcomitrella patens), 3'ss of exon 1
---------gtacttctcaaaaatc-caaactt---ttttttttctgttttttgagtttgaaattttctgtttttagttgttctcactgattgtctaaattcagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGAATCGATTCGTTTGCGAAATCTGTAACAAAGGTTTTCAACGTGACCAGAA
          || |   | ||  || | | ||      | ||||     |  |||   |||| |  | | ||||   ||| | |    |||||  ||    |||| || || || || ||||||||||||||||| || ||| | ||||| |||||||||||||| |||||||| |||||||| || ||||| || || || ||
ccttcgtgattagtctgcgaatgtctctagctcgaacgtgtttttaagatcgtgaaggtgaattaattttttttccattggtattg--gattgaatacg--cagACCCGGAAGCGGAGGTGATAGCTTTGTCACCAAAGACATTGATGGCCACGAATCGATTCGTGTGCGAAATTTGTAACAAGGGGTTTCAGCGAGATCAAAA

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|163988481|gb|ES102008.1|ES102008
EST:     AATCTTCCTGGAATGCCTG                         ATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGA
genomic: AATCTTCCTGGAATGCCTGgtacttctca ... ctaaattcagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGA
EST: gi|164104037|gb|ES104670.1|ES104670
EST:     AACTCCTAAATCCGTCGGGAAGAAGAAACGGAATCTTCCTGGAATGCCTG                         ATCCAGACGCTGAAGTGATAGCTTTGTCACCTAA
genomic: AACTCCTAAATCCGTCGGGAAGAAGAAACGGAATCTTCCTGGAATGCCTGgtacttctca ... ctaaattcagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAA
EST: gi|164193032|gb|ES185788.1|ES185788
EST:     ACTCCTAAAATCCGTCGGGAAGAAGAAACGGAATCTTCCTGGAATGCCTG                         ATCCAGACGCTGAAGTGATAGCTTTGTCACCTAA
genomic: ACTCCT-AAATCCGTCGGGAAGAAGAAACGGAATCTTCCTGGAATGCCTGgtacttctca ... ctaaattcagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgagtttgaaattttctgtttttagttgttctcactgattgtctaaattcagATCCAGACGCTGAAGTGATAGCTTTGTCACCTAAAACACTTATGGCAACGAATCGATTCGTTTGCGAAATCTGTAACAAAGGTTTTCAACGTGACCAGAA
           aaattttctgttttta  TA-rich tract