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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatcatagaaaaaaattgttttgttaattctttttgaaaaattagtcttctcattcttatatttattctcttgctcataaaccgttggcgttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG

Basic information

species Glycine max
transcript GLYMA08G15380.1
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 3
-----------------------------------------gtaagtatcatagaaaaaaatt---gttttgttaattctttttgaa-aaattagtcttct-cattcttatatttat--tctcttgctcataaaccgttggcgttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
                                         |||  |  || |  |     ||     | ||||  | |  ||  || |||||      || ||  ||   ||  |      |||     |||  || ||    | | | ||||||| ||||| ||||| ||||| || ||||||||| | || || || || ||||| |||||||||||||| |||||||| ||||| || ||| | || |
gtaactttggcccatcatgtctttgtttttccttctcccatgtagtttccagatcaggctcttcaaactgtgtttgtgcccttgaaataaattgaaaaactgcaacctagcatccaagaatacttttagctaactcgatgaaaatat-ctagGTTGGTTGGATTTATGGATCTGTCACTGAGGATATCCTCACGGGCTTCAAGATGCACTGCCATGGTTGGCGATCTGTGTACTGCATGCCCAAGAGACCAG

upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 12
lower sequence: AT4G39350.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagtatcatagaaaaaaattgttttgttaattctttttgaaaaattagtcttctcattcttatatttattctcttgctcataaaccgttggcgttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
          ||||||| | ||     |||  |    ||   |||| |||        ||||| |  |     ||||||| |||| |    |         ||| | |||||||| ||||| || ||||| || |||||| |||| || || || |||||||||||||| ||| | |||||||| || || ||||||||  | |
---------gtagaaaaca-ttacaaagtttttcaacttctgaaaactagaaaa---gttcttgtgatctcattcttgctgataatcacacg---------cagATCGGGTGGATTTATGGATCGGTGACTGAAGATATCCTGACGGGTTTCAAGATGCATTGCCATGGATGGAGATCTGTGTACTGTATGCCTAAGCGTGCAG

upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 12
lower sequence: AT2G21770.1 (Arabidopsis thaliana), 3'ss of exon 11
gtaagtatcatagaaaaaaattgttttgttaattctttttgaaaaattagtcttctcattcttatatttattctcttgctcataaaccgttggcgttttac-cagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
          || |  | |  | |||  |   |||| ||           | | || | | | | |  |  |    ||||  |  |  | |    |  ||| ||| |||||||||| ||||| || || || ||||||||||| || || || || |||||||||||||| ||| | ||||| ||||| || || |||||  | |
---------gta-agcagagctatttactctgttctcttctc--------tgtacttaatgtgaaagctgatta--tgcttttggat-gatataatactacacagATTGGGTGGATTTATGGCTCGGTCACTGAGGATATCTTAACGGGTTTCAAGATGCATTGCCATGGATGGAGATCTGTATATTGTATGCCAAAGCGAGCGG

upper sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 12
gtaagtatcatagaaaaaaattgttttgttaattctttttgaaaaattagtcttctcattcttatatttattctcttgctcataaaccgttggcgttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
    |||      |||||| |     |  | |     ||  |  |   |||  |  |||| | |  || ||||  |   ||  ||        |  |  |||||||||| ||||||||||| |||||||||||||||||  | || || || || ||||| |||||||| ||||||||||| || ||||| || ||||||||||
----gtaaggagaaaaaaattcaaagttctgaaaaccttccattagcaagttctaccattatcac-ttcattcctt---tctaaattttcaaacactgaaccagGTTGGCTGGATATATGGCTCTGTGACAGAGGATATACTAACAGGGTTCAAGATGCACTGCCATGGATGGCGGTCTGTTTACTGCATACCCAAGCGGCCTG

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|193479750|gb|FK445431.1|FK445431
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATACATGGTTCTGTGACAGAGGATATCTTGACTGG
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGG
EST: gi|193366105|gb|FK329490.1|FK329490
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATAT
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATAT
EST: gi|207697500|gb|GD679487.1|GD679487
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
EST: gi|193350701|gb|FK317033.1|FK317033
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
EST: gi|208160824|gb|GD961640.1|GD961640
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATT
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATT
EST: gi|208044214|gb|GD838790.1|GD838790
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACA
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACA
EST: gi|193352596|gb|FK315928.1|FK315928
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
EST: gi|208332861|gb|GE126984.1|GE126984
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATA
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATA
EST: gi|193345684|gb|FK313767.1|FK313767
EST:     CCAGGTCATCAGTTGTGGTTATGAAGACAAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
genomic: CCAGGTCATCAGTTGTGGTTATGAAGAC-AAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAA
EST: gi|207696973|gb|GD679894.1|GD679894
EST:     TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAA                         GTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACT
genomic: TCCAGGTCATCAGTTGTGGTTATGAAGACAAAACAGAATGGGGAAAAGAAgtaagtatca ... gttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttctcattcttatatttattctcttgctcataaaccgttggcgttttaccagGTTGGGTGGATATATGGTTCTGTGACAGAGGATATCTTGACTGGATTTAAAATGCATTGCCATGGTTGGCGGTCTGTGTATTGCATTCCTAAGCGGCCTG
                                              ttttacc  CT-rich tract
      tcattcttatatttat  TA-rich tract