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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggcctatttgatgacttgatcaattatataggtggccttgtttacttgttcagtattataacatgtaaatgatcatttgttgtttgttgtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTATACAGAATTTAAATTCCCACAGATTAAAGCACATCCATGGCACAAG

Basic information

species Glycine max
transcript GLYMA20G22600.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G22600.3 (Glycine max), 3'ss of exon 9
lower sequence: Vv14s0060g00600.t01 (Vitis vinifera), 3'ss of exon 9
ttggcctatttgatgacttgatcaattatataggtggccttgtttacttgttcagta-ttataa-catgtaaatgat----catttgttgtttg-ttgtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTATACAGAATTTAAATTCCCACAGATTAAAGCACATCCATGGCACAAG
       |||  |  | ||| |  || ||| |       |  |   | |||  | |  || ||| |||  |    ||    ||  | |  | || ||||  |  |||||| ||||||||||||||||||| || ||||| ||||||||||| || |||||||| || |||||||| || |||||||| || ||||||||||||
-----tcattcca--atttggttgataatagatactcattcttcctcctgtctaattcttgtaatcatccagtccatttgccaaatctaatatggttgtttttgcagGTTTTGGGCACTCCAACAAGGGAGGAAATTAAATGCATGAACCCCAACTATACAGAGTTCAAATTCCCCCAAATTAAAGCTCACCCATGGCACAAG
















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|6566240|gb|AW233921.1|AW233921
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAT                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|22522569|gb|BU081380.1|BU081380
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|120495461|gb|EH223628.1|EH223628
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|12773850|gb|BG238777.1|BG238777
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|15287684|gb|BI471575.1|BI471575
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|14990268|gb|BI315941.1|BI315941
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|27426708|gb|CA938228.1|CA938228
EST:     CTTTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATTATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|11413300|gb|BF425311.1|BF425311
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGNTGAGATCATCAAG                         GNTCTGGGCACTCCAACAAAGGAAGAGATTAAGTGCATGAACCTTA-TTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|9258249|gb|BE346396.1|BE346396
EST:     AGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: AGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|209699788|gb|BW655801.1|BW655801
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|15000029|gb|BI320843.1|BI320843
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|254333710|gb|GR848628.1|GR848628
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|192321549|gb|FK012899.1|FK012899
EST:     CTCTGTTCCCTGATGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|6725763|gb|AW310162.1|AW310162
EST:     AGTGGAGTTGATCACCTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATAAAGTGCATGAACCNTAATTAT
genomic: AGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|14990090|gb|BI315763.1|BI315763
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|11412139|gb|BF424159.1|BF424159
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|192321548|gb|FK012898.1|FK012898
EST:     CTCTGTTCCCTGATGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|120492579|gb|EH220746.1|EH220746
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|13481205|gb|BG510548.1|BG510548
EST:     CTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|22525150|gb|BU083970.1|BU083970
EST:     CTTTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATTATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
EST: gi|13481244|gb|BG510587.1|BG510587
EST:     CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAG                         GTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT
genomic: CTCTGTTCCCTGGTGAGAGTGGAGTTGATCAACTTGTTGAGATCATCAAGgtaatctttg ... gtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acttgttcagtattataacatgtaaatgatcatttgttgtttgttgtgctgacagGTTCTGGGCACTCCAACAAGGGAAGAGATTAAGTGCATGAACCCTAATTATACAGAATTTAAATTCCCACAGATTAAAGCACATCCATGGCACAAG
            ttataac  putative branch site (score: 2)
          tattataacatgtaaa  TA-rich tract