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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaatggtaagtagcagctttttgttagaatcgagaagctttgggatcttatgtagattctgactcgtgtgatgtaagttgtttaaaattttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATGCGAGGGCTGCACTGACTG

Basic information

species Glycine max
transcript GLYMA06G01180.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01180.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G39100.1 (Arabidopsis thaliana), 3'ss of exon 2
aaaatggtaagtagcagcttt-ttgttagaatcgagaagctttgg--gatcttatgtagattctgactcgtgtga-tgtaagttgtttaaaattttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATGCGAGGGCTGCACTGACTG
    |  ||| |    | ||| |  |   ||| |      |   |  | | ||    |||     | ||   ||| | ||| ||| ||    || |  ||||||||  || || ||||||||||| || ||||| |||||| | ||||||||||||||||  ||  |||| ||
--gttaataattcattgatttgtcatctaaattggtttcatgaagttgtttttgcaaagagaagtaatcaattgagtttaaattgatttt--ttctgtttgcagGTTCTGCAAGTGTGAGATGCCGTATAACCCAGATGACTTGATGGTGCAATGCGAGGAGTGTTCTGAGTG

upper sequence: GLYMA06G01180.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv03s0038g00160.t01 (Vitis vinifera), 3'ss of exon 2
----aaaatggtaagtagcagctttttgttagaatcgagaagctttgggatcttatgtagattctgactcgtgtgatgtaagttgtttaaaattttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATGCGAGGGCTGCACTGACTG
      | |   ||   | || |    |||   ||   |||  | |   ||   || |  |||  | ||  | || | ||   |   |  | ||| | | |||||||||||||||| ||||||||||||||||| ||||||||||||||||| || ||||| |||||||| ||
gatttcagttccaatgggtagttgagggttgtgattttgaatttatttcattccatttt-atttgggcttttctggttta---tcactcgattttccgtggcagGTATTGTAAATGCGAGATGCCTTACAACCCCGATGACCTAATGGTGCAGTGTGAGGGGTGCACTGATTG

upper sequence: GLYMA06G01180.2 (Glycine max), 3'ss of exon 1
lower sequence: PP1S298_65V6.1 (Physcomitrella patens), 3'ss of exon 2
--aaaatggtaagtagcagctttttgttagaatcgagaagctttgggatcttatgtagattctgactcgtgtgatgtaagttgtttaaaattttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATGCGAGGGCTGCACTGACTG
  | |    ||  ||      | |   ||  |||   |   | || |   || |||   ||| |  |      |  | |    |  |      |  |||||| ||||| || || |||||||||||||| ||||||||| | ||||| ||||| ||   |||||  |||||
atatatatatatatatatatatatatatatcatctt-atcatgtgtgtgtttgtgtttgttccgcattactgaacatca-ccatcgactccgctgtttgcagTTATTGCAAGTGCGAGATGCCTTACAATCCTGATGACTTGATGGTTCAATGTGAAATCTGCAAAGACTG

upper sequence: GLYMA06G01180.2 (Glycine max), 3'ss of exon 1
lower sequence: PP1S307_14V6.1 (Physcomitrella patens), 3'ss of exon 2
-----aaaatggtaagtagcagctttttgttagaatcgagaagctttgggatcttatgtagattctgactcgtgtgatgtaagttgtttaaaattttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATGCGAGGGCTGCACTGACTG
      || | |   |||  |  ||    | || |  | | |    |    | | || || |  ||||| | | || |||       |   | | |||  |  |||||||||||||||||||||||||| || || |||||  | ||||| ||||| |||   ||||  || ||
tatcctaagtcgagtgtaaaacattgagttaagtaaggtgtattcctttcttgtgatataaaggctgacccatttggtgtt-----ctctgactgttctgtatagGTATTGTAAATGTGAGATGCCTTATAATCCAGATGATTTGATGGTTCAATGTGAGACTTGCAAAGATTG

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|6963868|gb|AW432561.1|AW432561
EST:     TTGAGTACAAATTC-TCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGT                         GTATTGTAAATGTGAGATGCCTTACAACCATGATGACCTGATGGTGCAGTG
genomic: TTGAGTACAA-TTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
EST: gi|58019940|gb|CX706682.1|CX706682
EST:     TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGT                         GTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
genomic: TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
EST: gi|9985362|gb|BE659470.1|BE659470
EST:     TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGT                         GTATTGTAAATGTGAGATGCCTTNNAACCCTGATGACCTAATGGTGCAATG
genomic: TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
EST: gi|208042660|gb|GD842668.1|GD842668
EST:     TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGT                         GTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
genomic: TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
EST: gi|254336272|gb|GR842451.1|GR842451
EST:     TAGAGTTGCCGT                         GTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
genomic: TAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
EST: gi|58022943|gb|CX709684.1|CX709684
EST:     TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGT                         GTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
genomic: TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
EST: gi|208309370|gb|GE106788.1|GE106788
EST:     TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGT                         GTATTGTTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAAT
genomic: TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTG-TAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAAT
EST: gi|193325844|gb|FK290283.1|FK290283
EST:     TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGT                         GTATTGTAAATGTGAGATGCCTTACAA
genomic: TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTGTAAATGTGAGATGCCTTACAA
EST: gi|17401428|gb|BM178210.1|BM178210
EST:     TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGT                         GTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG
genomic: TTTGAGTACAATTCCTCCACCGGCGCCTTCAATCCTGATAGAGTTGCCGTgtgagtccat ... ttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcttatgtagattctgactcgtgtgatgtaagttgtttaaaattttcattgcagGTATTGTAAATGTGAGATGCCTTACAACCCTGATGACCTAATGGTGCAATGCGAGGGCTGCACTGACTG
            ttctgac  putative branch site (score: 2)
                                           ttttcatt  putative PPT
                             taagttgtttaaaatt  TA-rich tract