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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA

Basic information

species Glycine max
transcript GLYMA15G01680.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 3'ss of exon 15
gtattaactcttt--tcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagac-atcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
||||  | | | |  ||| | | ||| || |  |||    ||       || ||| | | |  | | | |  | | |  |  |    |||  | |  | | | |          |||| || ||||||| ||| ||||| |||||||||||||||||||||||||| || || ||||| || |||||| | |||||||| || || ||
gtatatattgtgtgctccatgcaagaatttttattttgttaa-------tgtattttctattgtagtattttgtgcactacaaatttatcccgttgtacatttac---------agGTCACCACGATGTATCACTTGGATCGCCCTATGTACTTGTTGGGATATCTAGCGAATCAAAGCCGAGTTTATCTTATTGACAAGGAATTCAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 15
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
    ||| | |  ||   || | |    |  ||      ||    | |  ||      |  |      | ||     ||     |  | | || |   |  ||||   |  |||| ||||| |||| ||||||||| |||||||||||||||||||||||| |||| ||||||||||| |||||| | |||||||| ||||| ||
---gtaaatatagtctgctcgaaaacatttcttctgtttaaattctctatatgggcact--tcatgtcatgacttcaattgcttacatagttataagct--ttatacttacagGTCACTACAATGTATCATTTGGATCGCCCTATGTACTTGTTGGGATATATTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTGAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 15
gtattaactcttttc-ccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
|||  ||   | | | ||||  | |  | |  ||      |||   | |  ||      |   |||   ||||     ||     |    | || |   |  || |   |  |||| ||||| |||| ||||||||| |||||||||||| | |||||||||||||| ||||||||||| |||||| | |||||||| ||||||||
gtaaaaatagtctactccttgaaaacgttttcttctgtttaagttctctatatggccactttgtgagtcacgacttcaattgtttacacagttataagct--ttgtacttacagGTCACTACAATGTATCATTTGGATCGCCCTATGTACCTATTGGGATATCTTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTTAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 16
gtattaactcttt-tcccttctagatttctagtttaaaaaaagaat-tgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatt-tagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
   ||||| |||  |  |  |   || | |||  |    || | || | ||  |  ||  | |  ||       |  | ||| |  ||||  ||  |  ||  | |||  ||  |||| ||||| |||||||| ||||| || |||||||| || || ||||||||||| |||||||||||||| ||| | |||||||| || |||||
--gttaacacttaatttcaccataatctgtagaatcttgaatgcatatctgtttgattcctga--gagtgtttggttttatgtgctatct--atttaccatc-tcatgtgttacagGTTACTACAATGTTTCACTTGGATCGGCCTATGTATTTATTAGGATATCTTGCTAACCAAAGTCGTGTATATCTTATTGACAAGGAATTTAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G448913_T01 (Zea mays), 3'ss of exon 4
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttga-tacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
                               | | |||  ||| |     |      | |||||  ||   |    ||||   |||  |||     ||   ||  |||  ||||  |   || ||| | || | ||| |||||||||||| ||||||||||| |||| ||||||||||| |||||| | |||||||| ||||| ||
-----------------------------tttctgaaagtagactccaatacc----taaattggcctgttaccg-catggtccattatgaacttgtagccatattgacattagaaatacac-atgatgcaatagGATCGCCCTATGTACCTGTTGGGATATATTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTGAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G141587_T05 (Zea mays), 3'ss of exon 15
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatt-tagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
|   | | | |||||    ||  |       |   | | |    |   |     |  || || ||  ||    | |     | |||    ||     ||  | |||  ||  |||| || ||  ||||||| ||||| || || ||||| || || |||||||||||||||||||| ||||| ||| | ||||| ||  | |||||
gaggtgagttttttcatcacttaaaaagacatcctatatatctttcaagttagatcatttatgga--tagagtgctttcatgtcataaccatttcatattttcatgtgttaCAGGTCACAACTTTGTTTCACTTGGATCGGCCAATGTATTTATTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 15
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatt-tagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
||      | |  || |||  | |    |  | || |      |   |  ||  ||| |   |  | | |    ||      ||   || |||  |     | |||  ||  |||| || ||  ||||||| ||||| || || ||||| || || |||||||||||||||||||| ||||| ||| | ||||| ||  | |||||
gtgagttttttcatcacttaaaaagacatcctatatatctttcaagttagatcatttatggatagagtgctttcatgtcataaccatttcatattt-----tcatgtgttacagGTCACAACTTTGTTTCACTTGGATCGGCCAATGTATTTATTAGGATATCTTGCAAACCAAAGCCGTGTCTATCTTATTGATAAGCAATTTAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 19
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
             ||  |||||| ||| | |   || ||| |  || ||  || | |||  ||| | |  |||  |||  |  | ||||             |||   |  |||||||||| |||| |||| ||||||| ||||||||||||||||| ||||| || || |||||  | ||||||||||||||||||||||| ||
------gtaaggctcatttctaggtttttgga--aagaaacgttttatgttttttattttgttgtaat-tgagattcagtactcctctta------------tat---tacagGTAACTACAATGTATCATCTGGACCGTCCTATGTACTTGTTGGGTTATCTCGCTAATCAAAGCAGGGTTTATTTGATTGACAAAGAGTTCAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 15
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
                                   |   |||| |      || ||| ||||  | ||    |    |    | ||  |      ||||     ||     ||||||| || |||| ||||||||||||||| ||||| ||||| || ||| |||| |||||||| || ||||| ||| | |||||||| || ||
---------------------------------gtactcaagagtctatttttatttctaatc-atctttatgagctacattatataatagctgctaatatacctgtggc-agGTAACCACAATGTATCATTTGGACCGCCCAATGTATTTGTTAGGCTATATTGCCAACCAAAGCCGGGTTTACTTGGTAGACAAAGAATTCAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 15
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
                 || |  || | |  |    |    || |||    || || | || || | |   | |||             | |   |||  ||  | |   |||||||| || |||| ||||||||||||||| ||||| |||||||||||||||||||  |||||||| ||||  ||| | |||||||| || ||
--------------gtattgtgcatatatgttggttactctgatttggaagttgttatgaactggattctaatgat-------------ggttgctaac-atcgtaatactagGTAACCACAATGTATCATTTGGACCGCCCAATGTATTTGTTGGGATATCTTGCAAGTCAAAGTCGGGTTTTCTTGGTAGACAAAGAATTCAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaattt-agGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
        | || |   || |  |    |   || |||  |      |   | |   | |  |  | | |  ||||     |     ||  |    ||| |  ||   ||  ||||||| || ||||||||||||||||| |||||||| |||||||||||||| || || ||||| || || ||| | || ||||||||||| ||
-------gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA

upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 15
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
                 |   |||    |  ||  |      | || |  ||   | | |  |  | |   |||  ||   | ||| |  ||   ||||| | |||| || ||||||| || |||||||| |||||||| |||||||| ||||| ||||||||||| |  |||||||| |||||| | || ||||||||||||||
----------------gtataagagagttgattccaggttgtatttctatat--atatgatcttcattctaaggtgca---gtcatataaattgttaatg-tgatgatttcagGTAACCACCATGTTTCACTTGGACCGGCCTATGTATTTGTTAGGATATCTTGCCAGTCAAAGTCGCGTTTATCTTATAGACAAAGAGTTTAA

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|193431246|gb|FK396852.1|FK396852
EST:     TATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTAGAG                         GTAACTACGAT
genomic: TATCTACAACAATACCTCTTGGAGACTTAATTACTGTGTTGGTGGT-GAGgtattaactc ... atgaatttagGTAACTACGAT
EST: gi|208052816|gb|GD853933.1|GD853933
EST:     TTATCTACAACAATTCCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAG                         GTAACTACGATGTTTCATTT
genomic: TTATCTACAACAATACCTCTTGGAGACTTAATTACTGTGTTGGTGGTGAGgtattaactc ... atgaatttagGTAACTACGATGTTTCATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattgaactacgaggatcatgagacatcttgatacataatgattatgaatttagGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA
                                atacataatgattatg  TA-rich tract