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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttgcatacaacttatttgctcacaatgcttaaatagagtttggaacaatgatcttttttgtcctgatattatgcaatactttggctttgcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGATGATCCTCAGGGAAAGGTTGGTGTGACGGGAAGTGGGAAAGGTTTGACAG

Basic information

species Glycine max
transcript GLYMA17G00560.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G00560.2 (Glycine max), 3'ss of exon 8
lower sequence: AT2G02570.3 (Arabidopsis thaliana), 3'ss of exon 8
ttttgcatacaacttatttgctcacaatgcttaaatagagtttggaacaatgatcttttttgtcctgatattatgcaatactttggctttgcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGATGATCCTCAGGGAAAGGTTGGTGTGACGGGAAGTGGGAAAGGTTTGACAG
                           |  ||| |||  |  |  |  |  | ||||| || || || |          |    || ||||  ||  ||| | || |||||| | || || ||    |||||||| |||||||| ||||| |||||    ||||| || |||||||| ||||||||||||||||||||||
-------------------------gtttgttagatacggaattca-tatggctctttgttctcttggtggggattctgagacgggttttggttgtgcagGTAGGGTTCTTCACAGGGAGGAAGAAAGAGAGTATATTTAAATCACCTGAGGATCCATTTGGAAAAGTGGGTGTGACTGGAAGTGGGAAAGGTTTGACAG

upper sequence: GLYMA17G00560.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv12s0035g01830.t01 (Vitis vinifera), 3'ss of exon 8
ttttgcatacaacttatttgctcacaatgcttaaatagagtttggaacaatgatcttttttgtcctgatattatgcaa-tactttggctttgcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGATGATCCTCAGGGAAAGGTTGGTGTGACGGGAAGTGGGAAAGGTTTGACAG
|  | ||  |   |   ||     | |  |||  ||  |  | |     ||   | |||||    |  |  | || |  |    ||  |||  || | |||||||||||||| || ||  | || || || || || || || ||||||||||||||  | || |||||||||||||| ||||| |||||||| |||||||
tccttcactctgttagcttttgtcctac-ctttgatctacatggctcttataccccttttttcttttcttctttgtatctgtaatgtgtttaaattcccagATTGGTTTCTTTTCGGGCCGCAAGCGAGAAAGCATCTTCAAGTCTCCTGATGATCCAAACGGCAAGGTTGGTGTGACTGGAAGCGGGAAAGGATTGACAG

upper sequence: GLYMA17G00560.2 (Glycine max), 3'ss of exon 8
lower sequence: PP1S59_369V6.1 (Physcomitrella patens), 3'ss of exon 8
--------------------ttttgcatacaac-ttatttgctcaca--atgcttaaatagagtttggaacaatgatcttt--tttgtcctgatatt---atgcaatactttg----gctttgcatgca-cagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGATGATCCTCAGGGAAAGGTTGGTGTGACGGGAAGTGGGAAAGGTTTGACAG
                    | || | |||||| |||||  |   ||  ||| |   |   ||| ||      || |  ||  || | ||   | ||   ||| |     |||    | ||| | |||| ||    || |||||| | ||  | ||| ||||||||||||| |||||||||||||||||| |||||||||| || || || || ||||| |||||    |   
gtaagtggtaatgtgttttatattacttacaaccttattctcatccagcatgatggcagcaagtgtgcgggcttggttgttgtttcggcccactgttctaatgtagcttattgtgttggtttacttgcagCAAGGAGGATTCTTCACAGGGCGCAAAAGGGAGAGTATTTTCAAATCTCCTGATGATCCTAAGGGAAAGGTAGGCGTCACAGGTAGTGGAAAAGGGACCA---

upper sequence: GLYMA17G00560.2 (Glycine max), 3'ss of exon 8
lower sequence: PP1S51_234V6.1 (Physcomitrella patens), 3'ss of exon 7
-------ttttgcatacaacttatttgctcacaatgc--ttaaatagagtttggaacaatgatcttttttgtcctgatattatgcaatactttggctttgcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGATGATCCTCAGGGAAAGGTTGGTGTGACGGGAAGTGGGAAAGGTTTGACAG
       ||||  || ||  ||| |  |  | ||  |  |     |   |   ||||||    ||      |  | || |   ||| |   |    |||  |    ||  | || |||||| | ||  | ||| ||||||||||||||||| |||| ||||||||| |||| ||||| ||||| || || || || |||||        
ttaaggatttttaattca--ttactatccaaaaactcagtgtgtcattttcctgaacaaccg-ctgcccattattaatttggcgcattgtgtgaattttctagCAGCAAGTGGGGTTCTTCACGGGGCGTAAAAGGGAGAGTATTTTTAAAACTCCGGATGATCCTAAGGGGAAGGTAGGTGTCACAGGTAGCGGAAAAGGAA------

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|22932382|gb|BU549521.1|BU549521
EST:     GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|193358345|gb|FK324957.1|FK324957
EST:     GTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
genomic: GTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|192298363|gb|FG992123.1|FG992123
EST:     GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGNNNNNNNNNNGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|207843163|gb|GD815113.1|GD815113
EST:     GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGTTTCTTCTCTGGAAGAAA-CGGGNGAGTATTTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|9258723|gb|BE346870.1|BE346870
EST:     GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|192306193|gb|FG995043.1|FG995043
EST:     GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAGGGCAAAGAAG                         ATTGGNNNNNNNNCTGGAAGAAAACGGGAGAGTATCTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|192306183|gb|FG995033.1|FG995033
EST:     GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGTTTTTTCTTTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|208312249|gb|GE107385.1|GE107385
EST:     GGCAAAATGCTTGGCAGCAATTTCAGTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|163926880|gb|EH039330.1|EH039330
EST:     GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
EST: gi|208290633|gb|GE087191.1|GE087191
EST:     GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAG                         ATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT
genomic: GGCAAAATGCTTGGCAGCAGTTTCAGTCAACCAAAGGAAAGGCAAAGAAGgtacctttct ... gcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacaatgatcttttttgtcctgatattatgcaatactttggctttgcatgcacagATTGGTTTCTTCTCTGGAAGAAAACGGGAGAGTATTTTTAAATCTCCTGATGATCCTCAGGGAAAGGTTGGTGTGACGGGAAGTGGGAAAGGTTTGACAG
                 tcctgat  putative branch site (score: 3)
       atctttttt  TA-rich tract