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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgccagactttattcttgtttaatatagatatgatagacctccctgtaagttgttatggttgtgcttagtgtgaccgacttgttttgttgtttgtacttaacagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATATTTTTAATGATGTCAAATTGGATGGTGTTGTTACTCTGGTTGATGCGAA

Basic information

species Glycine max
transcript GLYMA10G43740.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G43740.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g55630.1 (Oryza sativa), 3'ss of exon 3
gtaactgccagactttattcttgtttaatatagatatgatagacctccctgtaagttgttatggttgtgcttagtgtgaccgacttgttttgttgtttgtacttaacagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATATTTTTAATGATGTCAAATTGGATGGTGTTGTTACTCTGGTTGATGCGAA
     || |     ||    |  |   | ||  || |   | | || |   | | || || |  || |    | | |   | ||||||    |||| |  ||||  ||||||| |||||||| ||||| || || ||||| || |||||||| || |   ||||||||||||||||  ||||||||||||| ||| | || ||||| ||
----ttgtccacaattgaaatcctcagagattcatttttcaaagctactcattaattatt-taattatatgaaattttcac-acttgt---attgtcttaactttccagGTTTAGCAAATCCAGCACCCATTATACAGACTTTCTATGCAGAAGATACAGTTTTTAATGATGTCAAGCTGGATGGTGTTGTGACTTTAGTAGATGCAAA

upper sequence: GLYMA10G43740.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G80480.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaactgccagactttattcttgtttaatatagatatgatagacctccctgtaagttgttatggttgtgcttagtgtgaccgac--ttgttttgt---tgtttgtacttaacagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATATTTTTAATGATGTCAAATTGGATGGTGTTGTTACTCTGGTTGATGCGAA
                            |   || | |    |  | | | ||   || |  |    |     |  |||   |    | | || |   | |||  ||||   ||| |||||||| || ||||| || ||||| ||||||||||| |||||| | ||||| |||||||||||| |||| |||||||||||||| |||||||| ||
---------------------------gttgggaaagggggcattttcatttagtatgcttagagaatctggggaatgagtaatgactatcttatgtttattttcactttttagGATTGGCAAACCCGGCACCGATTATCCAAACCTTTTATGCCGAGGAAGAAATTTTCAATGATGTCAAACTGGACGGTGTTGTTACTCTAGTTGATGCTAA

upper sequence: GLYMA10G43740.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G15730.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaactgccagactttattcttgtttaatatagatatgatagacctccctgtaagttgttatggttgtgcttagtgtgaccgacttgttttgttgtttgtacttaa---cagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATATTTTTAATGATGTCAAATTGGATGGTGTTGTTACTCTGGTTGATGCGAA
             || | | || | ||  |       | || |     |  ||||     |    | || |      ||   | |   | | || | | || ||     |||| ||||| || ||||| || || || || || || ||||| |||||  | ||||| |||||||||||  ||||||| ||||| |||||||||||||| ||
------------gttcaatattttctatcactctggagctacatgattcgttaagaaccaactactatgttattaaagaataaatgaatatattatgtatattttctttcagGATTGGCTAACCCTGCTCCGATTATTCAAACTTTCTATGCTGAGGATGAAATTTTCAATGATGTCAAGCTGGATGGGGTTGTCACTCTGGTTGATGCTAA

upper sequence: GLYMA10G43740.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv09s0002g08260.t01 (Vitis vinifera), 3'ss of exon 3
gtaactgccagactttattcttgtttaatatagatatgatagacctccctgtaagttgttatgg-ttgtgcttagtgtgaccgacttgttttgttgtttgta-cttaacagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATATTTTTAATGATGTCAAATTGGATGGTGTTGTTACTCTGGTTGATGCGAA
          |  | ||  |||  || | | | || |   |   |  |  |  |  |||  ||| ||   ||  || | |    | ||  |  ||||||| | ||| ||||| ||||||||||| |||||||| || ||||| |||||||| |||||  | ||||| |||||||||||| ||||||| ||||||||| |||||||||| ||
----------gtatatacacttcctttacagatatgtagcatttcgactagctaaatgtgttggatttctctgggttttatattcatgaatc-ttgtttgcaacttcacagGATTGGCAAATCCAGCACCAATCATTCAGACATTTTATGCTGAGGATCAGATTTTCAATGATGTCAAACTGGATGGCGTTGTTACTTTGGTTGATGCTAA

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|23063927|gb|BU578701.1|BU578701
EST:     AGTCGCAAAGAAGAAAGGAAAATTTGACCATATTGTTATTGAGACTACAG                         GTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATA
genomic: AGTCGCAAAGAAGAAAGGAAAATTTGACCATATTGTTATTGAGACTACAGgtaactgcca ... tacttaacagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATA
EST: gi|20448580|gb|BQ252704.1|BQ252704
EST:     AGTCGCAAAGAAGAAAGGAAAATTTGACCATATTGTTATTGAGACTACAG                         GTTTGGCAAATCCTGCACCA
genomic: AGTCGCAAAGAAGAAAGGAAAATTTGACCATATTGTTATTGAGACTACAGgtaactgcca ... tacttaacagGTTTGGCAAATCCTGCACCA
EST: gi|20448652|gb|BQ252776.1|BQ252776
EST:     AGTCGCAAAGAAAAAAGGAAAATTTGACCATATTGTTATTGAGACTACAG                         GTTTGGCAAACCCTGCACCAATAATCCAG
genomic: AGTCGCAAAGAAGAAAGGAAAATTTGACCATATTGTTATTGAGACTACAGgtaactgcca ... tacttaacagGTTTGGCAAATCCTGCACCAATAATCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttgttatggttgtgcttagtgtgaccgacttgttttgttgtttgtacttaacagGTTTGGCAAATCCTGCACCAATAATCCAGACCTTTTATGCAGAGGAAAATATTTTTAATGATGTCAAATTGGATGGTGTTGTTACTCTGGTTGATGCGAA
                              ttgtttt  TA-rich tract