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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCGAGTTTCTGGCTATGGTGGATGGTTTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcctcacagctagtgttggtgtttttatgcaatattaaaacaatgcaactgattcagactgatcatacttgttactgtag

Basic information

species Glycine max
transcript GLYMA20G32030.1
intron # 16
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G32030.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G069676_T02 (Zea mays), 5'ss of exon 16
GTCCGAGTTTCTGGCTATGGTGGATGGTTTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcctcacagctagtgttggtgttt-ttatgcaatattaaaacaatgcaactgattcagactgatcatacttgttactgtag
||  | ||||| || |||||||| |||||  | || ||  | || || ||||||||||| |||||||| ||||||||||||    || ||||  |   | |   |  |  | | |  || |   |   |||  |      ||  ||                    
GTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctcttcacttcctctctcaatcctaatgaaggcatttcggagtcatgtgatgtgcgcatgctacag----------------

upper sequence: GLYMA20G32030.1 (Glycine max), 5'ss of exon 16
lower sequence: GRMZM2G069676_T01 (Zea mays), 5'ss of exon 1
----------------------GTCCGAGTTTCTGGCTATGGTGGATGGTTTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcctcacagctagtgttggtgttt-ttatgcaatattaaaacaatgcaactgattcagactgatcatacttgttactgtag
                      ||  | ||||| || |||||||| |||||  | || ||  | || || ||||||||||| |||||||| ||||||||||||    || ||||  |   | |   |  |  | | |  || |   |   |||  |      ||  ||                    
TTTTATGGCATACCATACACAGGTAAGGGTTTCAGGATATGGTGGGTGGTTCTTGCTGAGGCTCTCTCTGCATGATCCTGTTCTTCCCCTAAACATTGAGgtagttctcttcacttcctctctcaatcctaatgaaggcatttcggagtcatgtgatgtgcgcatgctacag----------------

upper sequence: GLYMA20G32030.1 (Glycine max), 5'ss of exon 16
lower sequence: AT5G17530.1 (Arabidopsis thaliana), 5'ss of exon 18
GTCCGAGTTTCTGGCTATGGTGGATGGTTTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcctcaca--gctagtgttggtgtttttatgcaatattaaaacaatgcaactgattcagactgatcatacttgttactgtag
 |||| ||||| |||| |||||||||||||||||| ||| | || |||||||||||||| |||||||||||||| ||||||||  |    | |  |||    || || |   |||  ||  ||    || |  || |  ||   | ||  |  |             
ATCCGCGTTTCGGGCTTTGGTGGATGGTTTCTTCTCAGACTTTCTCTCCATGATCCTGTTCTTCCCCTTAACATCGAGgtaaacatatgtataaagcttaacttagtttcagtatctaaacttt---cactcgaatt--tttcaattggacgcag------------

upper sequence: GLYMA20G32030.1 (Glycine max), 5'ss of exon 16
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 5'ss of exon 17
GTCCGAGTTTCTGGCTATGGTGGATGGTTTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcctcacagctagtgttggtgtttttatgcaatattaaaacaatgcaactgattcagactgatcatacttgt-tactgtag
|| |||| |||||||| ||| |||||||| ||||| ||| | || || ||||| ||||| ||||||||||||||||||||| |   ||      | |||||          | |  |  ||| ||  |  ||  |  ||   |||||  |||   |    |  |||
GTTCGAGCTTCTGGCTTTGGGGGATGGTTCCTTCTAAGACTCTCCCTTCATGACCCTGTTCTTCCCCTTAACATTGAGgtataatccccttt--caagtgtc---------acgttaagttataattac-cagatattttgcactgacaatatgagaactccatag

upper sequence: GLYMA20G32030.1 (Glycine max), 5'ss of exon 16
lower sequence: PP1S152_87V6.1 (Physcomitrella patens), 5'ss of exon 17
GTCCGAGTTTCTGGCTATGGTGGATGGTTTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcctca---------cagctagtgttggtgtttttatgcaatattaaaacaatgcaactgattc--------agactgatcatacttgttactgtag--------------------
 | || || ||||| ||||| ||||||||||| ||| ||||||| || ||||||||||| || ||  | ||||| ||||| ||  |  | |         ||  ||      ||| || | | |  |   || ||| | |   |   |         | | ||   | |||||   ||  |                     
ATTCGTGTCTCTGGGTATGGAGGATGGTTTCTGCTTCGATTATCCCTACATGATCCTGTTCTGCCGTTGAACATCGAGgtgaaatttgttatgctactaccaagtacctgctgtgattctgttctgtgcaaatacattcctgttacctttcatcactaaattgtgtaaacttgaccctacattccattttcttctcttacag

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|19270601|gb|BM886857.1|BM886857
EST:     TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG                         GCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
genomic: TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcc ... gttactgtagGCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
EST: gi|22931555|gb|BU548694.1|BU548694
EST:     TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG                         GCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
genomic: TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcc ... gttactgtagGCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
EST: gi|6341955|gb|AW164779.1|AW164779
EST:     TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAA                         GCCCCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
genomic: TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcc ... gttactgtagGCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
EST: gi|193326860|gb|FK290739.1|FK290739
EST:     TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG                         GCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
genomic: TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcc ... gttactgtagGCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
EST: gi|58020778|gb|CX707520.1|CX707520
EST:     TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG                         GCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
genomic: TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcc ... gttactgtagGCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
EST: gi|151403693|gb|EV273503.1|EV273503
EST:     TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG                         GCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
genomic: TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcc ... gttactgtagGCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
EST: gi|51344295|gb|CO985028.1|CO985028
EST:     TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG                         GCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
genomic: TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcc ... gttactgtagGCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
EST: gi|298163368|gb|HO012101.1|HO012101
EST:     TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAG                         GCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT
genomic: TTCTTCTTAGATTATCACTCCATGATCCTGTACTTCCCCTTAACATTGAGgtaaaggtcc ... gttactgtagGCACCTAGTAATGATGATGCTGTGAAGCTTGGACTTGCTGTGCTTGCAGCT