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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgaaagttcaacgacattgattgtcatatggttcattacctgcaccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA

Basic information

species Glycine max
transcript GLYMA09G06860.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g51630.3 (Oryza sativa), 3'ss of exon 4
----------------------gtaagtgaaagttcaacgacattgattgtcata--tggttcattacctgcaccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
                      ||  |  | ||||||| | |  | ||    | |  || ||  | | || |      | ||  | ||  ||          || |||||||| ||||||||||||||    |||||||||||||||||||||||||||||  | |||||||| |||||  |  | |   |||||    |  | || 
attttaatttgaattgtctagggtctgaaatagttcaa-gcccctaatgactagagttgattattgatcttcttactagattagtgattcttatg------ttttagGTACCCAAATTTGAAGAGTGTCCGTGAATTGATCTACAAGAGGGGCTATGGAAAGCTCAACAAGCAAAGAATCCCTCTTACAAACAACAAAGTCATCGAG

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os08g13690.1 (Oryza sativa), 3'ss of exon 5
-----gtaagtgaaagttcaacgacattga--ttgtcatatggttcattacctgcaccacgggttcttaatattt---gcaaatccact-------tcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
      | |  |  | || |  |   ||||  |||| | ||  ||  |||  |  |         ||   |   |   | |  | | ||       |||||||||| ||  |||||||||| |  |||||||||||||||||||| || |||||  | ||||||||||| ||| |  |  |  |||||    |  |||| 
gggttctcatagtgactttatagcttttgagcttgttagatacttggttatttttaatgttctacctggctgaatcaagtaccttctctggtgtgatcagGTACCCAAACCTGAAGAGTGTCAGGGAATTGATCTACAAGAGGGGTTACGGAAAGCTCAACAAGCAGAGGATTCCTCTTCAGAACAACAAAGTCATTGAG

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G094051_T03 (Zea mays), 3'ss of exon 5
---------------gtaagtgaaagttcaacgacattgattgtcatatggttcattacctgcaccacgggttcttaatat--ttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
               |  ||||   |    |   | |  ||  |    ||||   | | ||||  |    |  |||| ||   | |||||||   || |||||||| || ||||||||||| |  || ||||||||||||||||||||||||||  | ||||||||||| ||  |  |     |||||    |  | || 
aaaaaacataaagcagacagtgcctggagtagttcctgcatcttagcttggtgactcatctgcttctgatgaccttactaaagtggcaaatcttgtttagGTACCCAAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAAGCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM5G868433_T02 (Zea mays), 3'ss of exon 5
-----------gtaa-gtgaaagttcaacgacattgattgtcatatggttcattacctgca-----ccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
             ||   || |||     |  | | | ||     | | |   |  || ||      || |   |    | | |   | |||   || |||||||| || ||||||||||| |  || |||||||||||||||||||| |||||| | ||||||||||| ||  |  |   | |||||    |  | || 
aaaacattgctacaataggagagtctggaggtagttactgcatctttgcttggtgactccagcttctcatgaccttgctaaactgatatatcttgtttagGTACCCGAACTTGAAGAGTGTCAGGGAGTTGATCTACAAGAGGGGCTACGGAAAACTGAACAAGCAGAGGATCCCTCTGTCTAACAACCAAGTCATCGAG

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G344279_T01 (Zea mays), 3'ss of exon 5
---------gtaagtgaaa--gttcaacgacattg----attgtcatatggttcattacctgcaccacgggttcttaatat--ttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
          |||   | |  ||     |   ||     ||  |    ||||   | | ||||  |    |  |||| ||   | |||||||   || |||||||| || ||||| ||||| |  || ||||||||||||||||||||||||||  | ||||||||||| ||  |  |     |||||    |  | || 
gaaaaaagcataaagcatactgtctggagtagttcctgcatcttagcttggtgactcatctgcttccgatgaccttactaacgtggcaaatcttgtttagGTACCCAAACTTGAACAGTGTCAGGGAGTTGATCTACAAGAGGGGCTATGGAAATCTGAACAAGCAGAGGATCCCTCTGTCCAACAACCAAGTCATCGAG

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G01250.1 (Arabidopsis thaliana), 3'ss of exon 5
----gtaagtgaaagttcaac----gacattgattgtcat---atggttcattacctgcaccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
    |||  |  |   ||| |      | || | | | ||   |||    |  |   |       |  | | | | ||  |   |    ||||| | |||||| ||||||||||| || ||||||||||||||||| || || |||||  ||||| | ||||| || || || | ||||||||||||||| || 
gtatgtatatacactctcatcctaaaccctttaatctgatgctatgagataacaagagtcttgaagagtgtgacttttctcttctgtttttcagATTCCCTAACTTGAAGAGTGTCAAGGAATTGATCTACAAGAGAGGTTACGGAAAGCTTAACCACCAGAGGATAGCTTTGACTGACAACTCTATTGTAGAG

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00030.t01 (Vitis vinifera), 3'ss of exon 4
----gtaagtgaaagttcaacgacattga----ttgtcatatggttcattacctgcaccacgggttcttaatatttgcaaatcc-----acttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
    |||  | |   ||        || |     | | | | |  | |     |  |  |    ||  |||| | |  | ||       | || |||||||| ||||||||||||||   ||||||||| ||||||||||| || |||||  | ||||||||||||| |||||| |  |||||||| ||||| |||
gtaagtatctcactctttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttgtaatgtatttatatttcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTACGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00210.t01 (Vitis vinifera), 3'ss of exon 5
---------------------gtaagtgaaagttcaacgacattgattgtcatatggttcattacctgcaccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
                      |   | ||| | | |  | |    || | |  | ||  ||||       |    ||  ||| |||| ||||||  | || |||||||| ||||||||||||||   |||| |||| ||||||||||||||||||||  | ||||||||||||| |||||| |  |||||||| ||||| |||
gtaagtatcttactcttttgtttttcttaaaatcctataaaa--agttctgaacttgtgtattattcatttctaatgtattta-tatt-gcaaat--attttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00090.t01 (Vitis vinifera), 3'ss of exon 3
------gtaagtgaaagttcaacgacattgattgtcatatg----gttcattacctgcac--cacgggttcttaatatttgcaaatc-----cacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
      |||  | |   ||         | |   || |||     ||||   || || |    |    ||  |||| | |  | ||       | || |||||||| ||||||||||||||   |||| |||| ||||||||||||||||||||  | ||||||||||||| |||||| |  |||||||| ||||| |||
gggtaagtatcttactcttttgtttttcttaagatcctataaaaagttctgaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAACTGATTTACAAGAGGGGCTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0052g00290.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtgaaagttcaacgacattgattgtcat-atggttcat---tacctgcaccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
||| |||      |  | |  || ||   | | | || ||||   | |     | |   ||| || ||||    ||      |||||||| || ||||| |||||||| |  ||| |||| ||||||||||| ||||||||| ||||||||||||||| |||  | | ||| ||||| ||  |||||
gtatgtgttctgactgccaacttcataaccttcagggatcatatctccacatgcaatctgttattcatatactgaagattgtttcagGTATCCCAATTTAAAGAGTGTCAGGGAACTGATTTACAAGAGGGGTTATGGAAAACTTAACAAGCAGAGAACTGCTCTGACTGATAACTCAATCATTGAA

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00060.t01 (Vitis vinifera), 3'ss of exon 4
----gtaagtgaaagttcaacgacattgattgtcatatggttcatt---acctgcac--cacgggttcttaatatttgcaaatc-----cacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
    |||  | |   ||         | |   || |||      |    || || |    |    ||  |||| | |  | ||       | || |||||||| ||||||||||||||   ||||||||| ||||||||||| ||  ||||  | ||||||| ||||| |||||| |  |||||||| ||||| |||
gtaagtatctcacccttttgtttttcttaaaatcctataaaaagtctaaacttgtatagtattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGTGAGAATTGATTTACAAGAGGGGGTACAGAAAGTTGAACAAGCTGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

upper sequence: GLYMA09G06860.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 4
----gtaagtgaaagttcaacgacattgattgtcatatgg-----ttcattacctgcaccacgggttcttaatatttgcaaatc-----cacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
    |||  | |   ||         | |   || |||        | |     |  |  |    ||  |||| | |  | ||       | || |||||||| ||||||||||||||   ||||||||| ||||||||||| ||||||||  | ||||||||||||| |||||| |  |||||||| ||||| |||
gtaagtatctcactcttttgtttttcttaaaatcctataaaaagtctaaacttgtatattattcatttctaatgtatttatattgcaaatattttagGTACCCCAATTTGAAGAGTGTGCGAGAATTGATTTACAAGAGGGGGTATGGAAAGTTGAACAAGCAGAGAACTGCCTTGACCGACAACTCCATTGTGGAA

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|193462755|gb|FK427310.1|FK427310
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAAATTGATCTACAAGAGGGGCGTAT
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAA-TTGATCTACAAGAGGGGC-TAT
EST: gi|192302637|gb|FG994889.1|FG994889
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATTTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|193691684|gb|FK628905.1|FK628905
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|7285803|gb|AW598290.1|AW598290
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|19345954|gb|BM890834.1|BM890834
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|298188869|gb|HO035562.1|HO035562
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|298175439|gb|HO015072.1|HO015072
EST:     AAAGCTACCGTGAATATGCTGCGTAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|192302636|gb|FG994888.1|FG994888
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|209706672|gb|BW676168.1|BW676168
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|192307308|gb|FK001266.1|FK001266
EST:     TGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: TGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|192307307|gb|FK001265.1|FK001265
EST:     AAGGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|151407003|gb|EV276818.1|EV276818
EST:     AGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|18732369|gb|BM527007.1|BM527007
EST:     ACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAAGA-TGTAAAAGAATTGATCTACAAGAGGGGCTATG
genomic: ACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTG-AAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATG
EST: gi|24205580|gb|BU964833.1|BU964833
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
EST: gi|151401089|gb|EV270903.1|EV270903
EST:     AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGG                         GTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG
genomic: AAAGCTACCGTGAATATGCTGCATAGGGTAGAGCCTTATGTTACCTATGGgtaagtgaaa ... tccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatatggttcattacctgcaccacgggttcttaatatttgcaaatccacttcagGTACCCTAATTTGAAGAGTGTAAAAGAATTGATCTACAAGAGGGGCTATGGAAAAGTTAACAAGCAGAGAATTGCCTTAAATGACAACTCTATTGTTGAA
                             tcttaat  putative branch site (score: 3)
                                             tccacttc  putative PPT
                               ttaatatttgcaaat  TA-rich tract