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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCAAGACATTTGGTGAAGCATTGGATAAGACCCAGACCGTCATTTGGAATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatgataaaaaaaataataaatcacttcatctgctatattttgaaagatatttgtaaaagtactctttgagaagctcttaaatgtgcacctataa...

Basic information

species Glycine max
transcript GLYMA08G17600.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G17600.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os02g07260.1 (Oryza sativa), 5'ss of exon 6
CATCAAGACATTTGGTGAAGCATTGGATAAGACCCAGACCGTCATTTGGAATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatgataaa---aaaaataataaatcacttcatctgctatattttgaaagatatttgtaaaagtactctttgagaagctcttaaatgtgcacctataa
||||||||| |   | ||||||||||| |    | | ||  |||||||||| ||||| ||||| || ||||||||||| ||||||||  |||| || || || || |  ||  |   | |     | |    || ||| | || | ||||    |    |    |   |  ||||| |  ||                     
CATCAAGACTTCCAGCGAAGCATTGGACACCTGCAACACTATCATTTGGAACGGACCTATGGGAGTCTTTGAGTTTGAGAAGTTTGCAGCAGGCACTGATgttagtacaattgactcacatccgctgatctcctgcattttctttcttttttctgtcgctaaacattctcgtctttcatcag---------------------

upper sequence: GLYMA08G17600.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv19s0085g00370.t01 (Vitis vinifera), 5'ss of exon 5
CATCAAGACATTTGGTGAAGCATTGGATAAGACCCAGACCGTCATTTGGAATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaa-gaatgataaaaaaaataataaatcacttca---tctgctatattttgaaagatatttgtaaaagtactctttgagaagctcttaaatgtgcacctataa
 |||||||| ||||| ||| | || ||||  ||| | ||| |||||||||||||||| |||||||| |||||||| |||||||||||    ||||||||||||| | || ||| | | |   || ||  | |  |   ||  ||| ||| |   |     || ||   | | |  ||||  |  |   |||     | |  |  
TATCAAGACTTTTGGCGAATCTTTAGATACTACCAAAACCATCATTTGGAATGGACCTATGGGTGTGTTTGAGTTCGATAAGTTTGCATTGGGAACAGAGgtaatgcataatatacacatacatgaaatattctaatgtcaactacattgtttgatgctcttttacctgcaatgcttga--atttaccaaaccaaaaacctt--
















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|10845201|gb|BF068362.1|BF068362
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|214004623|gb|DB985360.1|DB985360
EST:     TGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCTC-CAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: TGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGC-CACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|16344823|gb|BI970418.1|BI970418
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|193644454|gb|FK589920.1|FK589920
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|213614671|gb|DB980593.1|DB980593
EST:     GGATCAAT-GGTCGTTTTTGAGTTTGATAAGTTTGCCTA-AGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATA
genomic: GGACCAATGGGT-GTTTTTGAGTTTGATAAGTTTGCC-ACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|254341878|gb|GR853015.1|GR853015
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|193487170|gb|FK450891.1|FK450891
EST:     AGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: AGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|193699075|gb|FK636268.1|FK636268
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|7028539|gb|AW458322.1|AW458322
EST:     ATGTACCAATGGGTGATATTGAGTTTGATGAGTATGCCACAGGAACAGAG                         GCCATAGCCAA
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAA
EST: gi|213594848|gb|DB975526.1|DB975526
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCTACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|58023047|gb|CX709788.1|CX709788
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|58018976|gb|CX705718.1|CX705718
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|13312572|gb|BG406223.1|BG406223
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|208310101|gb|GE109367.1|GE109367
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGA-TAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|209721584|gb|BW671725.1|BW671725
EST:     TGGACCAATGGGTGTTTTTGAGTTTGATAAG-TTGNCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: TGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTG-CCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|213600122|gb|DB976039.1|DB976039
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|193360606|gb|FK328162.1|FK328162
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|192314966|gb|FK010784.1|FK010784
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|208074294|gb|GD868659.1|GD868659
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|207712806|gb|GD693430.1|GD693430
EST:     GGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: GGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|207702210|gb|GD682965.1|GD682965
EST:     TGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: TGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|207765800|gb|GD735119.1|GD735119
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|213610588|gb|DB978587.1|DB978587
EST:     TGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: TGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|193385634|gb|FK350254.1|FK350254
EST:     ATGGACCAATGG-TGTTTT-GAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|192306299|gb|FG995093.1|FG995093
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|207753511|gb|GD722829.1|GD722829
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCAT
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCAT
EST: gi|207775510|gb|GD747305.1|GD747305
EST:     TGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: TGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|193686757|gb|FK626122.1|FK626122
EST:     TTGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: -TGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|208150093|gb|GD951667.1|GD951667
EST:     ATAAGTTTGCCACTAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATAAGTTTGCCAC-AGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|58019207|gb|CX705949.1|CX705949
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|209709350|gb|BW678894.1|BW678894
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|7029931|gb|AW459714.1|AW459714
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|193388263|gb|FK356578.1|FK356578
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|17023004|gb|BM094030.1|BM094030
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
EST: gi|21285792|gb|BQ473663.1|BQ473663
EST:     ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAG                         GCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC
genomic: ATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatga ... ttctgcacagGCCATAGCCAAGAAACTGGCAGAGCTGAGTGGGAAGGGAGTAACGACCATC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATCAAGACATTTGGTGAAGCATTGGATAAGACCCAGACCGTCATTTGGAATGGACCAATGGGTGTTTTTGAGTTTGATAAGTTTGCCACAGGAACAGAGgtaagaatgataaaaaaaataataaatcacttcatctgctatattttgaaagatatttgtaaaagtactctttgagaagctcttaaatgtgcacctataa

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