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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttattgcttctccaattttatattgatggtttgtattttcccaagatcagaattgttcttcacaattgagaatttatgttcaaattttgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCAAGACTCCTTTCTTCAACCAACCAGCCTAGCTTTTTGAGCCCTAAAGATT

Basic information

species Glycine max
transcript GLYMA06G09320.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G09320.2 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 3'ss of exon 13
tttttattgcttctccaattttatattgatggtttgtattttcccaagatcagaattgttcttcacaattga---------gaatttatgttcaa--attttgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCAAGACTCCTTTCTTCAACCAACCAGCCTAGCTTTTTGAGCCCTAAAGATT
    ||   | |   | ||     | | |   ||| | ||    ||| |  | ||    ||| | | | ||            |||  |||   |  | |   ||   ||||| ||||  |||| ||||||||| |||   |||||||| || |||||||||||||| || || |||||||||||||| || ||  | |||   |||||| 
---gtaagtcattcgctatagggcagttaaactttctgttaatacaaaaaaaaaaaaactctgctccactgctctccatactgattactgtcttatcactaaaattttcagAGGATCACAGAGAAGCAGAACAAAGTTTCAATTACTGATAGGATGTGGGCAAGACTTCTCTCCTCAACCAACCAGCCAAGTTTCCTCAGCAAGAAAGATG

upper sequence: GLYMA06G09320.2 (Glycine max), 3'ss of exon 12
lower sequence: LOC_Os01g09570.1 (Oryza sativa), 3'ss of exon 10
---------------tttttattgcttctccaatttta-tattga---tggtttgtattttccca--agatcagaattgt-tcttcacaat-tgagaatttatgttcaaattttgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCAAGACTCCTTTCTTCAACCAACCAGCCTAGCTTTTTGAGCCCTAAAGATT
               | ||| |   |  || |  |||| | || |     |||    | ||| ||  |||    ||   | || | | ||| ||   | | |   ||      |  |   ||||||||||  |||| |||||||||||| ||||| || ||||| |||||||| ||  | || |  || || ||||||||  ||||  ||||||   | ||  
gtaagtccagaacactctttttcaatgatcaatctttagtgttcagttcagttcagttcttcacaccagacatcaaccatatcctgataatctggacactgaaactccggcgatt-tctacagAGAATCACGGAGAAGCAGAACAAGGTGGTGATCACGGACAGGATGTGGGCGAGGGTGCTGTGCTCGACGAACCAGCCATGCTTCCTGAGCCACGAGGACG

upper sequence: GLYMA06G09320.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 3'ss of exon 12
---tttttattgcttctccaattttatattgatggtttgtatttt---cccaagatcagaattgttcttcacaattgagaatttatgttcaaattttgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCAAGACTCCTTTCTTCAACCAACCAGCCTAGCTTTTTGAGCCCTAAAGATT
     || || |  ||  |  | ||  ||  ||| |||   | ||           |||||  |||       |   |   ||| | ||  |    ||||   ||| | ||||||||||| | ||||||||||||||| || ||||| ||||||||||| |||||||| ||||| |||||||| |||||   || ||| |||||| 
aagaattcatggtgtcctc--tcttgaatgaatgattttgctcttaggttttgacacagaacagttgag-gttacaaaacttttgtatttga---ctgatgtgcagCGCATCAATGAGAGTCGGAACAAGGTTGTGATAACCGACAGGATGTGGGCAAGGCTCCTTTCGTCAACAAACCAGCCAAGCTTCCAGAACCCCAAAGATG

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|254330797|gb|GR842062.1|GR842062
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|57576052|gb|CX549023.1|CX549023
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|207775996|gb|GD748225.1|GD748225
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|15814347|gb|BI786622.1|BI786622
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|193599972|gb|FK549737.1|FK549737
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|254334741|gb|GR844526.1|GR844526
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|193666112|gb|FK610533.1|FK610533
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|298176657|gb|HO026778.1|HO026778
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|254334742|gb|GR844527.1|GR844527
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|208136778|gb|GD935062.1|GD935062
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGCTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|254320047|gb|GR830963.1|GR830963
EST:     GATTTACAGTTGGACT-GTCAAT-GCAGACAGAC-TATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|254320046|gb|GR830962.1|GR830962
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|254339207|gb|GR847924.1|GR847924
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|58024605|gb|CX711346.1|CX711346
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
EST: gi|17024115|gb|BM095149.1|BM095149
EST:     GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATT                         AGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA
genomic: GATTTACAGTTGGACTGGTCAATGGCAGACAGACTTATATTCCATTCATTgttagtttct ... tgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagatcagaattgttcttcacaattgagaatttatgttcaaattttgatacccagAGAATCAATGAGAGGCAGAACAAGGTTGTGATTACTGACAGAATGTGGGCAAGACTCCTTTCTTCAACCAACCAGCCTAGCTTTTTGAGCCCTAAAGATT
                                          ttttgat  putative branch site (score: 4)
                            aatttatgttcaaatt  TA-rich tract