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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccctgcttctgctaaaccctctttttattattggttgttgttgtcatcttattgtagccatatttcagGGGGGATTTTAACTTGAACAATTTTCAAGATGGAGTTCTGTCATCTGCATTTATGGTTGGACTTCTAATTGCTTCCCCAATATTTGCTTCTCTGGCCAAA

Basic information

species Glycine max
transcript GLYMA09G33680.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G65687.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------gtaagccctgcttctgctaaaccctctttttattattggttgttgttgtc----atcttat-tgtagccat-atttcagGGGGGATTTTAACTTGAACAATTTTCAAGATGGAGTTCTGTCATCTGCATTTATGGTTGGACTTCTAATTGCTTCCCCAATATTTGCTTCTCTGGCCAAA
                | |    || || ||  ||    | | |||||  ||   ||     | |    |  || | |||  |  |   | |||||| || |||||||| |  || ||| |||||||  || |||||||||| |||||||||||||||||  | ||||| |||||||| |||    || | |||
gtaagtttttttgttctgaattttgattttgagaataattatgtttatagttttatgagaaagacttagactttgtgtgtgtctgttgatacagGGGAGAGTTTAACTTAACTAACTTTGAAGATGGTCTTTTGTCATCTGCGTTTATGGTTGGACTTCTTGTGGCTTCTCCAATATTCGCTGGATTGTCAAAA

upper sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G22730.1 (Arabidopsis thaliana), 3'ss of exon 2
---------------------------------------------------------gtaagccctgcttctgctaaaccctct---ttttattattggttgttgttgtcatcttattg----tagccatatttcagGGGGGATTTTAACTTGAACAATTTTCAAGATGGAGTTCTGTCATCTGCATTTATGGTTGGACTTCTAATTGCTTCCCCAATATTTGCTTCTCTGGCCAAA
                                                          ||  |  |  |      |     |     ||| | | | |  | ||||| |  | |  ||     | | | | ||| |||||  |||||||| | |  |||||  ||||||| ||  |||||||| ||||||||||||||||||| ||||| || ||||| ||||||||  |||| |||
gtaagatattttgatgcaatgtagaatcaagatgataattcaatatttgaattttatttatacttttatatcataatgtttttcgtatttcagtctggagtattgttctgttttacttaaaaatgggctttttttagGGGACATTTTAACCTAAGTAATTTCGAAGATGGTGTATTGTCATCTTCATTTATGGTTGGACTTCTTATTGCATCACCAATCTTTGCTTCATTGGCAAAA

upper sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0205g00120.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------gtaagccctgcttctgctaaaccctctttttattattggttgttgttgtcatcttattgtagccata--tttcagGGGGGATTTTAACTTGAACAATTTTCAAGATGGAGTTCTGTCATCTGCATTTATGGTTGGACTTCTAATTGCTTCCCCAATATTTGCTTCTCTGGCCAAA
                         | || |  |  |   ||      || |||   || |||||| |  ||||| |  |  | |     |   || ||||||||||||||| |||| ||| || || ||||| ||| | ||||||||||| ||||||||||||||  | ||||| ||||||||||| ||  |||| || 
aaatttggctgtatacatttaagcagaaaacatttatatagcatttttctttttaatttcttggttttcattgtccttatgatattattgttgcttgcagGGGGGATTTTAATTTGAGCAACTTCCAGGATGGTGTTTTATCATCTGCATTCATGGTTGGACTTCTTGTAGCTTCTCCAATATTTGCATCCTTGGCAAAG

upper sequence: GLYMA09G33680.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S61_45V6.1 (Physcomitrella patens), 3'ss of exon 1
---------------------------------gtaagccctgcttctgctaaaccctctttttattattggttgttgttgtcatcttattgtagccatatttcagGGGGGATTTTAACTTGAACAATTTTCAAGATGGAGTTCTGTCATCTGCATTTATGGTTGGACTTCTAATTGCTTCCCCAATATTTGCTTCTCTGGCCAAA
                                   || ||     | ||        |  || || ||| || | |    ||   | | ||| |      |   ||||| ||||||   ||||   | |||||||||||  |||| || ||||||||||||||||| |||||| | || |||||  | || |||   ||| | || 
aagctccaacattgaatgcatgtgttcacatccacaacccaaatatttgtacgcagtttcttctaatatagggtttaacagtttaccttttgga------tggtagGGGCGATTTTGGGTTGACTTACTTTCAAGATGGGATTCTATCGTCTGCATTTATGGTTGGGCTTCTAGTAGCGTCCCCCTTTTTCGCTCACCTGTCGAAG

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|298194152|gb|HO040800.1|HO040800
EST:     CTTGCAACTTGCACTGACTCTGGAATTTGTACAGGTGGCAGTGGAATTCA                         GGGGGATTTTAACTTGAACAATTTTCAAGATGGAGTTCTGTCATCTGCATT
genomic: CTTGCAACTTGCACTGACTCTGGAATTTGTACAGGTGGCAGTGGAATTCAgtaagccctg ... catatttcagGGGGGATTTTAACTTGAACAATTTTCAAGATGGAGTTCTGTCATCTGCATT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaccctctttttattattggttgttgttgtcatcttattgtagccatatttcagGGGGGATTTTAACTTGAACAATTTTCAAGATGGAGTTCTGTCATCTGCATTTATGGTTGGACTTCTAATTGCTTCCCCAATATTTGCTTCTCTGGCCAAA
 tgctaaa  putative branch site (score: 2)
        tttttattattggtt  TA-rich tract