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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtactaatgcattttctttgaacatcaagctaataatgttgactaaaatatgaaacttactcaaatatcaaaccttgaaattgctgttaaatgattacagAGATGGACGAGAATGTCAATAATGAACACAGCAGGTTCATTCAAGTTTAGCAGTGACCGGACGATCCACGAATACGCCAAAGACATATGGAATATTAAGC

Basic information

species Arabidopsis thaliana
transcript AT3G29320.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G29320.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA19G03490.1 (Glycine max), 3'ss of exon 14
-gtaagtactaatgcattttctttgaacatcaagctaat-aatgttgactaaaatatgaaactta-ctcaaatatcaaaccttgaaattgctgttaaatgattacagAGATGGACGAGAATGTCAATAATGAACACAGCAGGTTCATTCAAGTTTAGCAGTGACCGGACGATCCACGAATACGCCAAAGACATATGGAATATTAAGC
 ||  |||    |  ||| ||  ||    |   | |  |  ||| |   |    | | |   ||| ||     |  ||   ||| ||      | | |||  | |||| |||||| |||||||||||| |||||||||||||||||| |||||||||||||||||| ||||| || ||||| |||  ||| |||||||| ||| | |
agttggtatagctctattgtccatggttgttctgttccttgatgatagttgc--tttcatgtttatctttggcactaacatttgtaa-----atcatatggatgcagAAATGGACAAGAATGTCAATATTGAACACAGCAGGTTCATACAAGTTTAGCAGTGACCGCACGATTCATGAATATGCCCGAGAGATATGGAACATTGAAC

upper sequence: AT3G29320.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA13G06040.1 (Glycine max), 3'ss of exon 14
gtaagtactaatgcattttctttgaacatcaagctaataatgttgactaaaatatgaaacttactcaaatatcaaaccttgaaattgctg--ttaaatgattacagAGATGGACGAGAATGTCAATAATGAACACAGCAGGTTCATTCAAGTTTAGCAGTGACCGGACGATCCACGAATACGCCAAAGACATATGGAATATTAAGC
     ||    |  ||| ||  ||   ||   | |  |    |  |  |   ||       |  |   || |    | || | |||       || |||  | |||| |||||| |||||||| ||| ||||||||||||| |||| |||||||||||||||||| ||||| || ||||| |||  ||| |||||||| ||| | |
-----tatagctctattgtccatggttattctgttcctt-catgcatcatgctagttgctctcatggtatctttggcattaacatttgcaaactatatgggtgcagAAATGGACAAGAATGTCGATATTGAACACAGCAGGCTCATACAAGTTTAGCAGTGACCGCACGATTCATGAATATGCCCGAGAGATATGGAACATTGAAC

upper sequence: AT3G29320.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: PP1S53_212V6.1 (Physcomitrella patens), 3'ss of exon 14
-------gtaagtactaatg-cattttctttgaacatcaagctaataatgttgactaaaatatgaaactta-----ctcaaatatcaaaccttgaaattgctgttaaatgattacagAGATGGACGAGAATGTCAATAATGAACACAGCAGGTTCATTCAAGTTTAGCAGTGACCGGACGATCCACGAATACGCCAAAGACATATGGAATATTAAGC
        | | | |  ||  |||            ||    |||     || |  ||||   |    | |     |  |   ||||  |||      ||   |    || || |||||||||||||| ||||| || |||||||| ||||| || | ||  || ||||||||| |||| || ||||| |||||||||||||| ||| | || | ||
gtgaaggctcattgcccatttcatcactccctgttttctccgtaactgcatttagaaaaagcagtccttcataacccctatccatcatgcctgactggtgtcatctcgtggttgcagAGATGGACGAGGATGTCGATCATGAACACTGCAGGATCTTACACTTTCAGCAGTGACAGGACTATTCACGAGTACGCCAAAGACATTTGGGACATAATGC

upper sequence: AT3G29320.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: PP1S195_41V6.1 (Physcomitrella patens), 3'ss of exon 10
--gtaagtactaatgcattt---tctttga-acatcaagctaataatgttgactaaaatatgaaactt----actcaaatatcaaacct---tgaaattg--ctgttaaatgattacagAGATGGACGAGAATGTCAATAATGAACACAGCAGGTTCATTCAAGTTTAGCAGTGACCGGACGATCCACGAATACGCCAAAGACATATGGAATATTAAGC
   ||   ||| || ||  |   ||  |||  | | |||| | |    || | |  | |   ||   |    | |  | | |    |||   | ||   |  |  ||   |  || |||||||||||||| ||||| || ||||| || ||||| || | ||  || ||||||||||| || ||||| || |||||||| ||||| ||| | || |  |
gtatacaaacttatccacctgaatccctgacgccttaagc-atttgccttcattttagtgcaaattctttataattcagtgttcctcctcactaaacccgaccctttttcttgttgcagAGATGGACGAGGATGTCGATCATGAATACTGCAGGATCGTACACATTCAGCAGTGACCGCACCATCCATGAGTACGCCAAGGACATTTGGGAAATCACTC

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|125105152|gb|EL159004.1|EL159004
EST:     TTACATCGAATGCCAAAGAAAAAGTCGACGAGGCATACCGAGACCAGAAA                         AGATGGACGAGAATGTC
genomic: TTACATCGAATGCCAA-GAAAAAGTCGACGAGGCATACCGAGACCAGAAAgtaagtacta ... atgattacagAGATGGACGAGAATGTC
EST: gi|164027458|gb|ES146681.1|ES146681
EST:     GTTACATCGAATGCCAAGAAAAAGTCGACGAGGCATACCGAGACCAGAAA                         AGATGGACGAGAATGTCAATAA
genomic: GTTACATCGAATGCCAAGAAAAAGTCGACGAGGCATACCGAGACCAGAAAgtaagtacta ... atgattacagAGATGGACGAGAATGTCAATAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatatgaaacttactcaaatatcaaaccttgaaattgctgttaaatgattacagAGATGGACGAGAATGTCAATAATGAACACAGCAGGTTCATTCAAGTTTAGCAGTGACCGGACGATCCACGAATACGCCAAAGACATATGGAATATTAAGC
        aacttac  putative branch site (score: 2)
                                         ttaaatgatta  TA-rich tract