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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aatgcagaaattcataattagttttaagtgttttatattcttgtttaaaaaattaatttgatgtggtatttagattttgttgtttgctgatctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC

Basic information

species Glycine max
transcript GLYMA08G03010.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G03010.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g51950.1 (Oryza sativa), 3'ss of exon 2
aatgcagaaattcataattagttttaagtgttttatattcttgtttaaaaaattaat----ttgatgtggtatttagattttg--ttgtttgctgatctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC
   |      ||  || ||| | ||     || || ||||  ||| || | ||| ||    || |  ||||   |    | ||  | |  |  |    | |||||| || ||||| ||||| ||||| ||    || ||||| ||||| ||||||||||| |||||||||||||| |||||||| || ||||| || ||    |||
---gagttgttttctatttactgtttcaaattgta-attc--gttcaatacattcatcttattaacttggttcctgatgtctgactcgcctattttgatcctgcagAGAAATGATTCAGCACAGGCCATATGACCAGAAAGTAGATGTCTATAGCTTTGGCATTGTTCTATGGGAGCTCATTACTGGCATGCTCCCTTTCGCTAAC

upper sequence: GLYMA08G03010.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g07790.1 (Oryza sativa), 3'ss of exon 2
aatgcagaaattcataattagttttaagtgttt---tatattcttgtttaaaaaattaatttgatgtggtatttagattttgttgtttgctgatct--actgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC
   ||| |  ||| ||   | | || | | | |    |    |    |   || |||| | | | |   |   | |||    | ||| ||| || |    | |||||| ||||||||||| ||||||||    || ||||| |||||||||||||||||||||||  | ||||| || || || || ||||| |||||    |||
---gca-agtttcttatgcaatcttgaatttctaaacaagaacccaatatcaatattactct-acgcatttagttgatgagctggttggcttattttgttttcagGGAAATGATCCAGCACAGGCCTTATGATCATAAAGTTGATGTATATAGCTTTGGGATTGTCTTGTGGGAGCTTATAACTGGCATGCTCCCATTCACAAAC

upper sequence: GLYMA08G03010.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os06g45300.1 (Oryza sativa), 3'ss of exon 2
aatgcagaaattcataatta-gttttaagtgttttatattcttgtttaaaaaattaatttgatgtggtatttagattttgttgtttgctgatctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC
      | || ||||||| | |  || |   |  |    |  ||||||     |||| |   |||       | || |  || | |    |||   |||||||||||||||||||| ||||||||    || ||||| ||||| || ||||||||||||||  | ||||| || || ||||| ||||| || ||    |||
------gtaagtcataatcacgcattcacgctcattgcctactgtttacctttttaaatctctgt------caaatatgcttatcttgccatca--tgcagGGAGATGATCCAGCACAGGCCTTATGATCATAAAGTAGATGTTTACAGCTTTGGGATTGTCTTGTGGGAGCTTATAACCGGCATGCTCCCCTTCACAAAC

upper sequence: GLYMA08G03010.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0065g00140.t01 (Vitis vinifera), 3'ss of exon 1
------aatgcagaaattcataattagttttaagtgttttatattcttgtttaaaaaattaatttgatgtggtatttagattttgttgtttgctgatctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC
      | |    ||   | || |  || |    || |  || |  |  | ||||   | ||  || |   ||      |||||  | ||| || | |  ||||||||||||||||||||| |||||||||||||| ||||| || || |||||||||||||| ||||| ||||||||||| || || ||||||||||| ||||||
tctcatacttattaaggccttagtacgtgtactttgctacatttattgttataaattttcaacctgcttgagtgc----attttcatattttctcaac--ctgcagGGAGATGATCCAGCACAGGCCTTACACACAGAAAGTCGACGTGTATAGCTTTGGGATCGTTCTTTGGGAACTCATCACTGGGATGCTTCCATTCCAGAAC

upper sequence: GLYMA08G03010.2 (Glycine max), 3'ss of exon 3
lower sequence: PP1S120_103V6.1 (Physcomitrella patens), 3'ss of exon 2
aatgcagaaattcataattagttttaagtgtttt---atattcttgtttaaaaaattaatttgatg--tggtatttagatttt-gttgtttgctgatctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC
    | ||      |  |  |||||  |  | ||   |  |||  ||| |||   |  |||   ||  |  || | |||  |  ||||     ||    |||||||||||||||||||||| |  |||||||  || |||||||| || || ||||||||  | ||  ||||||| ||  | || ||  || | || ||||| || 
----ctgattcaggtgttgtgttttgggcatctttagaggttcaggttcaaatgttcgattcattgcatattagtgagagctaagttggaccttgga--actgcagGGAGATGATCCAGCACAAACCTTACAATCACAAAGTGGACGTCTACAGCTTTGGTGTGGTCTTATGGGAGCTTGTGACAGGCCTGTTGCCCTTTCAAAAT

upper sequence: GLYMA08G03010.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ13809 (Selaginella moellendorffii), 3'ss of exon 1
aatgcagaaattcataattagttttaagtgttttatattcttgtttaaaaaattaatttgatgtggtatttagattttgttgtttgctg-atctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC
       ||   |||   |   ||       ||    || | || |      |  ||       |   |  |    |   |    | |  ||  | ||||| |||||||||||||| |||| |||||| || || ||||| || || |||||||| ||||| || ||||| ||||| || ||  |||| || || ||||||
-----gtaagcgcatttctctcttcgttctcttcgcgttttcgtgttcttcctccat--agctagacttcaaagcctcactaaccgtttcattcattgcagAGAGATGATCCAGCACAGGCTTTACACGCACAAGGTGGACGTTTACAGCTTTGGCATTGTGCTGTGGGAGCTCATCACAGGATTGCTACCGTTCCAGAAC

upper sequence: GLYMA08G03010.2 (Glycine max), 3'ss of exon 3
lower sequence: EFJ28993 (Selaginella moellendorffii), 3'ss of exon 1
aatgcagaaattcataattagttttaagtgttttatattcttgtttaaaaaattaatttgatgtggtatttagattttgttgtttgctg-atctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC
       ||   |||   |   ||       ||    || | || |      |  ||       |   |  |    |   |    | |  ||  | ||||| |||||||||||||| |||| ||||||||| || ||||| || || |||||||| ||||| || ||||| ||||| || ||  |||| || || ||||||
-----gtaagcgcatttctctcttcgttctcttcgcgttttcgtgttcttcctccat--agctagacttcaaagcctcactaaccgtttcattcattgcagAGAGATGATCCAGCACAGGCTTTACACACACAAGGTGGACGTTTACAGCTTTGGCATTGTCCTGTGGGAGCTCATCACAGGATTGCTACCGTTCCAGAAC

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|23057657|gb|BU578252.1|BU578252
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|8670413|gb|BE191520.1|BE191520
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|21677222|gb|BQ629573.1|BQ629573
EST:     TAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|9820339|gb|BE555849.1|BE555849
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|214008535|gb|DB987440.1|DB987440
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|193410066|gb|FK370803.1|FK370803
EST:     CAAACTGAAGGAATGACACCCGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|208288043|gb|GE082600.1|GE082600
EST:     CAAACTGAAGGAATGACACCCGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|193402008|gb|FK369383.1|FK369383
EST:     CAAACTGAAGGAATGACACCCGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|6667074|gb|AW278533.1|AW278533
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|23061409|gb|BU578458.1|BU578458
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|23057234|gb|BU577909.1|BU577909
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|9564443|gb|BE473952.1|BE473952
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTN
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|23728124|gb|BU762107.1|BU762107
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
EST: gi|193349022|gb|FK317384.1|FK317384
EST:     CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCC                         GGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT
genomic: CAAACTGAAGGAATGACACCTGAGACTGGAACATACCGTTGGATGGCTCCgtaagatcat ... tctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaaaaattaatttgatgtggtatttagattttgttgtttgctgatctactgcagGGAGATGATCCAGCATAGGCCTTACACACAAAAAGTGGATGTATATAGCTTTGGGATTGTTCTATGGGAACTCATTACCGGTATGCTTCCATTTCAGAAC
                                       tgctgat  putative branch site (score: 3)
                     tatttagattttgtt  TA-rich tract