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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaattttctcctttacgtgcattgtgtatacatgattctacatccagtcatctgacttgtaattaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCATCTGCATTTATTTTTCTATATGAGAACCAATTGTTCCTGACATTTCGAA

Basic information

species Glycine max
transcript GLYMA04G40290.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G40290.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G138840_T01 (Zea mays), 3'ss of exon 6
gtaagtaattttctcctttacgtgcatt------gtgtatacatgattctacatc----------cagtcatctgacttgtaattaat---tttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCATCTGCATTTATTTTTCTATATGAGAACCAATTGTTCCTGACATTTCGAA
    ||||   |  |   ||  |||| |        | |||  || |||  |||           |  | | || |||||||  ||||   | |||||  |||  ||  ||   ||||||||  |||||| ||| |||||||| |||||||| ||||||||||| ||||||   ||| |||||||||| || || |
----gtaagccttacacctaaatgcagtcaaacaaagaatatttgtttcatcattagcgttttaactctgaactcacttgtacctaatacctgtagGTAAGGAACTTCCAATTGACAGAAGTGAGCAGAACTGAGTTTATGACTCCATCTGCCTTTATTTTTCTGTATGAGCTGCAACTGTTCCTGACGTTCCGGA

upper sequence: GLYMA04G40290.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G145662_T01 (Zea mays), 3'ss of exon 6
gtaagtaat-tttctcctttacgtgcattgtgtatacatgattctacatccag-----------tcatctgacttgt--aattaat-tttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCATCTGCATTTATTTTTCTATATGAGAACCAATTGTTCCTGACATTTCGAA
||||| | | |  ||  || |     |    | |||  || |||   ||  ||           | | || ||||||  |  |||| | |||||  |||  ||  ||   ||||||||  |||||| ||| |||||||| ||||| || |||||||||||| |||||   ||| ||||| ||||||| || |
gtaagcattatacctaattcaaccaaacaaagaatatttgcttcgttattaagggttttaaccctgaactcacttgtgcacctaatatctagGTAAGGAACTTCCAATTGACAGAAGTGAGCAGAACTGAGTTTATGACTCCATCCGCCTTTATTTTTCTACATGAGCTGCAACTGTTCTTGACATTCCGGA

upper sequence: GLYMA04G40290.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv13s0067g00100.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtaattttctcctttacgtgcattgtgtatacatgattctacatccagtcatctgacttgtaattaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCATCTGCATTTATTTTTCTATATGAGAACCAATTGTTCCTGACATTTCGAA
||||| |  ||| || ||  | || |    ||   | |   | |||||      ||||   |  || ||  ||  |||| || | ||  ||    | ||||||| |||||| ||||||||||||||||||||||||||| |||||||||||||| ||||| |||||||| ||| | |
gtaagaatctttgtctttgtcttgaaaca-gtgagcttttatttacatatgaa-atctagatgctatttctttgcagGTACGCAATTCCGAGTTAAAAGAAGTTAGCAGAACTGAATTTATGACACCATCTGCATTTATATTTCTATATGAGAATCAATTATTCCTGACGTTTAGGA

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|193720245|gb|FK655389.1|FK655389
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACGCCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|207686706|gb|GD670052.1|GD670052
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|193562217|gb|FK516942.1|FK516942
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|193550229|gb|FK510262.1|FK510262
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|208066904|gb|GD867207.1|GD867207
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGGT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|58018556|gb|CX705298.1|CX705298
EST:     ATGANNAGCTACTCGTAAAGCAAGACAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|193445118|gb|FK409296.1|FK409296
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|19269973|gb|BM886229.1|BM886229
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|193719371|gb|FK653495.1|FK653495
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTT-GAACACACAGAAGTTTGCAGAAGTGTAATTTATGACACC
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTG-AATTTATGACACC
EST: gi|208189266|gb|GD985644.1|GD985644
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGGT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|193410309|gb|FK380216.1|FK380216
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTA
EST: gi|193452984|gb|FK418564.1|FK418564
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|193555344|gb|FK511029.1|FK511029
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGTACTTTTGAA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGG-ACTTTTGAA
EST: gi|120529430|gb|EH257564.1|EH257564
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACA
EST: gi|207717162|gb|GD697656.1|GD697656
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
EST: gi|208175143|gb|GD970434.1|GD970434
EST:     ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGAT                         GTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA
genomic: ATGAAAAGCTACTCGTAAAGCAAGAAAATGAGAATCTCCAGATTCTTGATgtaagtaatt ... ttaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcattgtgtatacatgattctacatccagtcatctgacttgtaattaattttagGTTCGGACTTTTGAACACACAGAAGTTTGCAGAAGTGAATTTATGACACCATCTGCATTTATTTTTCTATATGAGAACCAATTGTTCCTGACATTTCGAA
                                           aattaat  putative branch site (score: 3)
                                     acttgtaattaatttt  TA-rich tract