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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacacttttgtgtttagattttctctgttgtacatgccggtgcttcttgttcctgttaagtgttttctctcagttgtatggtgtttattaattgtggcgatttatatgggagttcaatatgcttttttttcatctatttctttattttcttttcagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGTACTCTGTTAACCAGGGGAAAACTCAATTCTTATGAGTCATTGGAACTGT

Basic information

species Glycine max
transcript GLYMA02G39360.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 11
gtacacttttgtgtttagattttctctgttgtacatgccggtgcttcttgttcctgttaagtgttttctctcagttgtatggtgtttattaattgtggcgatttatatgggagttcaatatgcttttttttcatctatttctttattttctttt-cagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGTACTCTGTTAACCAGGGGAAAACTCAATTCTTATGAGTCATTGGAACTGT
                                                         |     ||| || ||   |||  ||  | ||  | |  |    ||   ||||    |    |   |||   |||  |   ||||| |  |||    | |||||||| ||||| ||||||||||| ||||| ||||| |||||||||||||| ||  || ||||  |||| || |||||| |||| |||||  | || || |
--------------------------------------------------------attttcatttactttcctgtgttgggactgtacaactaatcttaatgcttatgctcttctgcttgacttagcttt--ttcgtttctgtgctttaaaatgcagAGTGTTCCTGTTCAAGCTGGGCAAACGCCTCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGGGGGAAGCTCAATGCTTACGAGTCTCTTGAGCTAT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 11
gtacacttttgtgtttagattttctctgttgtacatgccggtgcttcttgttcctgttaagtgttttctctcagttgtatggtgtttattaattgtggcgatttatatgggagttcaatatgcttttttttcatctatttctttattttcttttcagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGTACTCTGTTAACCAGGGGAAAACTCAATTCTTATGAGTCATTGGAACTGT
                                                         |     ||| || ||   |||  ||  | ||  | |  |    ||   ||||    |||    ||  ||   ||  ||  ||   |  ||||   | |||||||| ||||| ||||||||||| ||||| ||||| |||||||||||||| ||  || ||||  |||| || |||||| |||| |||||  | || || |
--------------------------------------------------------attttcatttactttcctgtgttgggactgtacaactaatcttaatgcttatgctc-ttctgcttgacttagctttttcgtttctgtgcttttaaatgcagAGTGTTCCTGTTCAAGCTGGGCAAACGCCTCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGGGGGAAGCTCAATGCTTACGAGTCTCTTGAGCTAT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 9
gtacacttttgtgtttagattttctctgttgtacatgccggtgcttcttgttcctgtta--agtgttttctctcagttgtatggtgtttattaattgtggcgatttatatgggagttcaatatgcttttttttcatctatttctttattttcttttcagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGTACTCTGTTAACCAGGGGAAAACTCAATTCTTATGAGTCATTGGAACTGT
                                                    |||| ||  ||  ||      || ||      |  | | |   |  |    ||| | ||     | ||||     || ||   | |||| ||||||     || |||||||| ||||||||||||||||| || || ||||| |||||||||||||| ||  || ||||  | || || |||||| | | ||||||  | || || |
----------------------------------------------------cctgctatcaggattcatgtacatttaatcaattctcagtgtataagttcctttctttga---cttaataa----ttcttatgtttattactttatcaaaattgcagAGTGTTCCTGTGCAAGCTGGGCAAACACCCCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGAGGGAAGCTCAATGCCTTTGAGTCTCTTGAGCTAT

upper sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 11
gtacacttttgtgtttagattttctctgttgtacatgccggtgcttcttgttcctgttaagtgttttctctcagttgtatggtgt-ttattaattgtggcgatttatatgggagttc-aatatgcttttttttcatctatttctttattttcttttcagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGTACTCTGTTAACCAGGGGAAAACTCAATTCTTATGAGTCATTGGAACTGT
                                                             || ||| |   | ||| |  || |  ||| | || |    |||||||    | |   || |  |    || |||||| ||| | |   || ||| |||||||| ||||||||| |||| ||||| ||||| |||||||||||||||||||||||||||||||| |||||||||||| |||  || ||| ||||| |||
-----------------------------------------------------------gatgctttatgagaattgaagagtttgctatcatttttacttatttataataaattgggaaaacacaagattgtcatctgtttttgttcattttttgcagAGTGTCCCTGTGCAATCTGGACAGACACCACCTCTGTTGCAGTACTTTGGTACTCTGTTAACCAGAGGAAAACTCAATGCTTTCGAATCACTGGAATTGT

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|207783597|gb|GD755961.1|GD755961
EST:     AATCTCCACGAGGAATTCTTCGAACTCCTGACACTGTTGCTAAATTTCAG                         AGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGT
genomic: AATCTCCACGAGGAATTCTTCGAACTCCTGACACTGTTGCTAAATTTCAGgtacactttt ... ttcttttcagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGT
EST: gi|207750074|gb|GD726028.1|GD726028
EST:     AATCTCCACGAGGAATTCTTCGAACTCCTGACACTGTTGCTAAATTTCAG                         AGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGT
genomic: AATCTCCACGAGGAATTCTTCGAACTCCTGACACTGTTGCTAAATTTCAGgtacactttt ... ttcttttcagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatgggagttcaatatgcttttttttcatctatttctttattttcttttcagAGTGTACCTGTGCAAGCTGGGCAGACGCCACCACTGTTGCAGTACTTTGGTACTCTGTTAACCAGGGGAAAACTCAATTCTTATGAGTCATTGGAACTGT
                tatgcttttttttcat  CT-rich tract
                     ttttttttcatctatt  TA-rich tract