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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTTACAAAGGTGCAGACTTCAGgtgtgtgtgtgtgtgcatgtgaaagcaccttaattaacatttaggatttgaattgtcaaataaaatcttttttgtccttcccattcctcttccccttcaaataataataataatgctatatgcacttgctgacag

Basic information

species Glycine max
transcript GLYMA04G06310.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os03g51540.1 (Oryza sativa), 5'ss of exon 7
ATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACT-----------TACAAAGGTG-CAGACTTCAGgtgtgtgtg-tgtgtgcatgtgaaagcaccttaattaacatttaggatttgaattgtcaaataaaatcttttttgtccttcccattcctcttccccttcaaataataataataatgctatatgcacttgctgacag
 | |||||||  ||||||| |||||||||||||||||| | |||||||||||||| ||||||  | | ||| | || |||           ||||| | || |||   | |  || || |   || |      |  ||||    ||   |  | |   | |    || | ||| |||||   |   |   ||  || |  ||||    | ||                                    
GTCCAGGACCACATGAGATCCAGTATGATGAAGAATGGCTTGCAATAACACGGAAATTCAACAATGTTTTCTCCTTAACTCGGATGCCATTTACAATGCTgtcagtgcttaactgcgtataacgtctttgctcgttagcatgcaaacagagttctgaaaatattttttttaaa-aaaataaatccagagtttttcaattgtcttgttttacag-----------------------------------

upper sequence: GLYMA04G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G461145_T01 (Zea mays), 5'ss of exon 8
ATGCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTTACAAAGGTGCAGACTTCAGgtgtgtgtgtgtgtgcatgtgaaagcacc-ttaattaaca-tttaggatttgaattgtcaaataaaatcttttttgtccttcccattcctcttccccttcaaataataataataatgctatatgcacttgctgacag
|| ||||||| ||||| || |||||||||||||||||| | ||||||||||| || ||||||  | | ||||||||  |    |  |   |||  | |   | || | ||  |||||| | | | |    ||  ||| || || || |  |   |  |    | |||   || | | | || | |    |       ||||| |  |  || | |                      
ATCCAGGACCATATGAAATCCAGTATGATGAAGAATGGCTTGCAATAACACGAAAATTCAACAGTGTTTTCCCTTTAGC----ACGGACACAGTTTAC---TATGCG-

upper sequence: GLYMA04G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0001g08180.t01 (Vitis vinifera), 5'ss of exon 7
ATGC-AGGACCTTATGAGATTCAGTATGATGAAGAATGGTTAGCAATAACACGGAAGTTCAACCCTATATTCCCTTTGACTTACAAAGGTGCAGACTTCAGgtgtgtgtgtgtgtgcatgtgaaagcaccttaattaacatttaggatttgaattgtcaaataaaatcttttttgtccttcccattcctcttccccttcaaataataata-ataatgctatatgcacttgctgacag
 ||| |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||| |||| || ||||| ||   | |  ||||| | ||  ||| ||||| | |     | |  | |||   |        || ||  | | | |  |||||| | || ||  ||||         |||| ||    |  ||   |||     | |   | |||||  | |     ||
-TGCCAGGACCTTATGAGATTCAGTATGATGAAGAATGGTTGGCAATAACACGGAAGTTCAACTCTATCTTTCCTTTAACCATCCATCGTGCAAATTTGGGgtctgtgtatcttc---tctatatgcattat--------ttcagattattattactcaaatcacattttcattgt-------ggtcctgtttttatataagagatagcctgttaacttttatgctttggaatgtag

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|21256328|gb|BQ453216.1|BQ453216
EST:     CGGAAGTTCAACCCTATATTCCCTTTGACTTACAAAGGTGCAGACTTCAG                         AGGCATAAATCTTGAGATGGAAGATTGTCTTGAATGGGTTAGAAGCAAGCT
genomic: CGGAAGTTCAACCCTATATTCCCTTTGACTTACAAAGGTGCAGACTTCAGgtgtgtgtgt ... ttgctgacagAGGCATAAATCTTGAGATGGAAGATTGTCTTGAATGGGTTAGAAGCAAGCT
EST: gi|51337820|gb|CO981686.1|CO981686
EST:     CGGAAGTTCAACCCTATATTCCCTTTGACTTACAAAGGTGCAGACTTCAG                         AGGCATAAATCTTGAGATGGAAGATTGTCTTGAATGGGTTAGAAGCAAGCT
genomic: CGGAAGTTCAACCCTATATTCCCTTTGACTTACAAAGGTGCAGACTTCAGgtgtgtgtgt ... ttgctgacagAGGCATAAATCTTGAGATGGAAGATTGTCTTGAATGGGTTAGAAGCAAGCT