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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatgatatcaatcttattgcacttacatatgtcattgttttttaaattaagttagatcccaaaagctttggatattcacttgagtttctttcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACATAATAGACGTGTCTGGCGGTGATAAAATTCCTCGGAAAGGTGGTCCTGG

Basic information

species Glycine max
transcript GLYMA08G08970.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G08970.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g49050.1 (Oryza sativa), 3'ss of exon 4
--------------------------------------------------------------------------tatgatatcaatct---tattgcacttacatatgtcattgttttttaaa------ttaagttagatcccaaaagctttggatattcacttgagt-ttctttcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACATAATAGACGTGTCTGGCGGTGATAAAATTCCTCGGAAAGGTGGTCCTGG
                                                                            ||  |||   ||    |  | |||    ||| |  || ||||  ||       ||| | || |||| ||| |       |  | |    | |  |    ||| |||||||||| |||||||||| |||||||||||| |||| ||||| || || ||||| || || || ||||| || || ||||| ||  | |||||||| |||||
gtatttaactctctgaatcccaacattggaagcacttctctattctttttatcatgtatgcttttgcaaaccatcctggcatcctgctacagacagaactgtattatctgtttattttggaaggcattgttatgctaaatccaaaatg----aagtgctaaaagaaatactgacacttgtgcagATAACTTGGCTGCCAACTTCAGCAGGGAACTGGCAGACTACATAATCTACATCATCGATGTTTCTGGTGGGGACAAAATACCAAGAAAAGGTGGCCCTGG

upper sequence: GLYMA08G08970.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g03120.t01 (Vitis vinifera), 3'ss of exon 8
------tatgatatcaatcttattgcacttacatatgtcattgttttttaaattaagttagatcccaaaagctttggatattcacttgagtttctttcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACATAATAGACGTGTCTGGCGGTGATAAAATTCCTCGGAAAGGTGGTCCTGG
        |   ||  |     ||     ||| ||    | ||||||| |   ||| || |      || | ||   | ||| |||| | ||| | ||  ||||||||||  | |||||||||||||||||||||||||| |||||||||||||| |||||||| || ||||| ||||| ||||||||||||||||| || || ||
taacaacttaccattgactcgtttatggatacttaaaggaatgtttttga---taatttgggataagaaggttt--aacatttacttcaatttgtgtca-ctgcagATAATTTAGCTGCCAATTTCAGCAGGGAATTGGCCGACTATATTATTTATATAATAGATGTATCTGGTGGTGACAAAATTCCTCGGAAAGGAGGCCCAGG

upper sequence: GLYMA08G08970.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S101_185V6.4 (Physcomitrella patens), 3'ss of exon 5
-------------------------------------------------------------tatgatatcaatcttattgcac--ttacatatgtcattgttttttaaatt--aagttagatcccaaaagctttggatattcacttgagtttctt-----tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACATAATAGACGTGTCTGGCGGTGATAAAATTCCTCGGAAAGGTGGTCCTGG
                                                             | || | | |||  || || |   || |||  |  ||||  |||  | ||   | ||   |    ||  || | | || || || |||||| ||     | ||||||||| || || || || || |||||||||||  |||| ||||| ||||||||||| || || || || || ||||||||||||||||| || |||||||| ||
gtaatactcctcagtatcttattacggtattgttaattggactggaattacacgtattacctgtgtt-taaatgataatgtaaagtttcattcgaaattggatttggagtttcgaatttcttgaagaagcctgttgttaatc-ctcgagtttgttgtgagttttctgcagACAATCTAGCGGCAAACTTCAGCAGGGAGCTGGCAGACTACATTATTTACATCATTGATGTATCCGGTGGTGATAAAATTCCTCGCAAGGGTGGTCCAGG

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|193443497|gb|FK404651.1|FK404651
EST:     GCTTTCTAACCTCATCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|208133691|gb|GD931764.1|GD931764
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|298196807|gb|HO041550.1|HO041550
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|208107836|gb|GD902012.1|GD902012
EST:     GCAGATATACTTCTTTGTGAATCGTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTAC
genomic: GCAGATATACTTCTTTGTGAATC-TGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTAC
EST: gi|14516547|gb|BI095219.1|BI095219
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|7146948|gb|AW508870.1|AW508870
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|193360337|gb|FK325121.1|FK325121
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCA
EST: gi|193386654|gb|FK349915.1|FK349915
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|207780309|gb|GD752118.1|GD752118
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|193700674|gb|FK636423.1|FK636423
EST:     CTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATT
genomic: CTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGG-AGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATT
EST: gi|31311386|gb|CD396589.1|CD396589
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|193729781|gb|FK664727.1|FK664727
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|9259040|gb|BE347187.1|BE347187
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|207812518|gb|GD785712.1|GD785712
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|193406312|gb|FK370623.1|FK370623
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGG
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGG
EST: gi|31462779|gb|CD404807.1|CD404807
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|10256481|gb|BE824247.1|BE824247
EST:     GCTTTCTAANCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|207794539|gb|GD767188.1|GD767188
EST:     GCAGATATACTTCTTTGTGAATCT-GGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
EST: gi|193362412|gb|FK326972.1|FK326972
EST:     GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAG                         ATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA
genomic: GCTTTCTAACCTCTTCAAAGCAGATATACTTCTTTGTGAATCTGGGGGAGgtattttttt ... tcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attaagttagatcccaaaagctttggatattcacttgagtttctttcttctgcagATAACCTGGCTGCCAATTTCAGCAGGGAATTGGCTGACTATATTATTTACATAATAGACGTGTCTGGCGGTGATAAAATTCCTCGGAAAGGTGGTCCTGG
                                       tttctttcttctgc  CT-rich tract
                          atattca  TA-rich tract