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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggcttctaagtttgaacccagaaaattcactatgtcatattgttatttgtgtttatgtatcacatccttttaacattgttatttttactttctatgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAG

Basic information

species Glycine max
transcript GLYMA01G09400.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA01G09400.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G137541_T01 (Zea mays), 3'ss of exon 3
gtggcttctaagtttgaacccagaaaattcactatgtcatattgttatttgtgtttatgtatcacatccttttaacattgttatttt-tactttctatgctt-----ttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAG
|| | | |||  ||    || | ||||      ||   |  |  || |  ||| || | | |||   |   ||| || |   | |    || ||| |  |||       |||||||||||||||| || ||||| || || ||||||||||| || ||||| || ||| |||| ||||||
gtaggt-ctatctt---gccaaaaaaaaaaggaatagaacttgcttgtgagtgctt-tatttcattgctgattatcagtacaaatgaacaccttcgacccttgaaatccagGTCACTGGCAAGGCGGTGATGCTTGACGAGATCATCAACTACGTTCAGTCCCTGCAAAGACAAGTTGAG

upper sequence: GLYMA01G09400.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G26260.1 (Arabidopsis thaliana), 3'ss of exon 3
---gtggcttctaagtttgaacccagaaaattcactatgtcatattgttatttgtgtttatgtatcacatccttttaacattgttatttttactttctatgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAG
       ||| |   |||  |    ||    |   | |   | | ||  |  ||    |  || |    | | | ||| || |    ||  | ||  | ||    ||||| ||||| |||||||| ||||| ||||||||||| |||||||| || ||||||||| | ||  | |||
gtaagtccttttctttttagatgttgatgtctacatgtagaagaatggaagctgaagct--gttttcttttcatataa-atgggacattgcatttattgtg----tagGTGACTGGTAAGGCAGTTATGCTCGATGAAATCATTAACTATGTGCAATCACTTCAATGCCAAATCGAG

upper sequence: GLYMA01G09400.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0010g00740.t01 (Vitis vinifera), 3'ss of exon 4
----gtggcttctaagtttgaacccagaaaat-tcactatgtcatattgttatttgtgtttatgtatcacatccttttaacattgttatttttactttct-atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAG
    ||   ||  || |   |||   |  |   | | ||  |   ||| |  | ||   ||   | |  | ||| |    ||||   ||    | |   | ||  || ||||||||||||||||| || ||||||||||||||||| |||||||| || ||||||||||| |||||||||
gttggtttgttggaattaataacttggggaccataattagattgaattatc-tatggaattcgatgttgcttccgtggctcatt-ccatgggaattgcttgatttttgtagGTCACTGGCAAGGCGGTCATGCTAGATGAAATCATTAACTATGTGCAATCACTTCAACGGCAGGTTGAG

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|193362293|gb|FK324809.1|FK324809
EST:     TAAGTGAGAGGATGAAGTTTCTTCAAGACCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|208160240|gb|GD953496.1|GD953496
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|193467285|gb|FK433924.1|FK433924
EST:     TAAGTGAGAGGATGAAGTTTCTTCAAGACCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|208231305|gb|GE033494.1|GE033494
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|208027231|gb|GD822633.1|GD822633
EST:     TAAGTGGGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATC
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATC
EST: gi|207712306|gb|GD693770.1|GD693770
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|23734956|gb|BU765737.1|BU765737
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|207711906|gb|GD693720.1|GD693720
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
EST: gi|193490748|gb|FK457749.1|FK457749
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCA
EST: gi|208182235|gb|GD980248.1|GD980248
EST:     TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAG                         GTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA
genomic: TAAGTGAGAGAATGAAGTTTCTTCAAGATCTTGTACCTGGATGCAGCAAGgtggcttcta ... atgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtttatgtatcacatccttttaacattgttatttttactttctatgcttttagGTCACTGGCAAGGCAGTAATGCTAGATGAAATCATCAACTATGTACAGTCACTTCAACGACAGGTTGAG
                   ttttaac  putative branch site (score: 2)
                                 tttttactttctat  putative PPT
                   ttttaacattgttatt  TA-rich tract