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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttatataccctctctatttttccttctcattgctattttattttgtggtttacttcagatattttgttggaagtgcagatacctgaatgtatatgtgaaatcaattcatatttgtagtatcatgatatggtaattatggtatgttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGATTTGTTTCTTTTCGGAATCAGCAG

Basic information

species Glycine max
transcript GLYMA13G17200.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G17200.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os11g40510.1 (Oryza sativa), 3'ss of exon 6
gtaagt-ttttatataccc-tctctatttttccttctcattgctattttattttgtggtttacttcagatattttgttggaagtgcagatacctgaatgtatatgtgaaatcaattcatatttgtagtatcatgatatggtaattatggtatgttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGATTTGTTTCTTTTCGGAATCAGCAG
|||||| ||| |  || |  | | |||||||  ||  || |    | | | | ||     | |    || ||||| | |||||    | ||  | |     | |   | || |     | | | |  || |   |||||          ||| ||  || ||| ||||| |||||||||||||||||||| || || || ||||| || ||||| |||||||||||  | |||||||||
gtaagtgtttcacgtatctgtgtgtattttttttttccagt----tctcactctgctagctgc----gacattttatcggaag----ggtattttaccagttgttcaagattatgcattttctttcttaccc--atatg----------tattttttttccagAGATGCTAGGGTAATGTGGGATCAGAAAACTGGACGATCCAGAGGTTTTGGTTTTGTTTCTTTCAGAAATCAGCAG

upper sequence: GLYMA13G17200.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G008611_T01 (Zea mays), 3'ss of exon 7
gtaagtttttatataccctctctatttttccttctcattgctattttattttgtggtttacttcagatattttgttggaagtgca-gatacctgaatgtatatgtgaaatcaattcatatttgtagtatcatgatatggtaattatggtatgttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGATTTGTTTCTTTTCGGAATCAGCAG
           ||  | ||  ||   |      |||||  ||  |  ||||  | ||  | |   || |||||    ||   ||  | ||| ||      ||  ||| ||       | | | || ||   |    |||||| | |           | ||| ||||| || || |||||||| ||||| ||||| || ||||| |||||||| |||||||||||  |||| ||||||
----------gtaagcactgcctggct------ctcatctctcctccatttacttgtc-attgttgacattttagcagagtggcttgctacttgtgca-gtacatgacat------gtctatttactagtttagcttggtaacttt-----------tgcagAGATGCTAGTGTTATGTGGGACCAGAAAACAGGACGATCCAGAGGATTTGGTTTTGTTTCTTTCAGGAACCAGCAG

upper sequence: GLYMA13G17200.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM5G835213_T02 (Zea mays), 3'ss of exon 6
gtaagtttttatataccctctctatttttccttctcattgctattttattttgtggtttacttcagatattttgttggaagtgca-gatacctgaatgtatatgtgaaatcaattcatatttgtagtatcatgatatggtaattatggtatgttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGATTTGTTTCTTTTCGGAATCAGCAG
           ||  | ||  ||   |      |||||  ||  |  ||||  | ||  | |   || |||||    ||   ||  | ||| ||      ||  ||| ||       | | | ||  |   |    |||||| | |           | ||| ||||| ||||| |||||||| ||||| ||||| || ||||| || ||||| |||||||||||  |||| ||||||
----------gtaagcactgcctggct------ctcatctctcctccatttacttgtc-attgttgacattttagcagagtggcttgctacttgtgca-gtacatgacat------gtctatttaccagtttagcttggtaacttt-----------tgcagAGATGCTAGGGTTATGTGGGACCAGAAAACAGGACGATCCAGAGGGTTTGGTTTTGTTTCTTTCAGGAACCAGCAG

upper sequence: GLYMA13G17200.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv11s0016g00700.t01 (Vitis vinifera), 3'ss of exon 6
gtaagtttttatataccctctctatttttccttctcattgctattttattttgtggtttacttcagatattttgttggaagtgcagatacctgaatgtatatgtgaaatcaattcatatttgtagtatcatgatatggtaattatggtatgttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGATTTGTTTCTTTTCGGAATCAGCAG
                      ||   | | ||  ||| ||  |||| ||||      | |||   || | |  |||       |  |  |    ||||| | ||| |  ||||   ||  ||                  || ||||||        ||| ||||| ||||| |||||||||||||| || || ||||| ||||| ||||| ||||||||||| ||||| ||||||
---------------------gtaagctccgtttgcatggcctttttgtttt-----cttctttgaatttgtgattgat----taactttccttgtgtatgt-tgagactaatttg-atccgtg-----------------ttctggtat--------cagAGATGCTAGGGTTATGTGGGATCAGAAAACTGGGCGTTCAAGGGGTTTTGGGTTTGTTTCTTTCCGGAACCAGCAG

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|13252197|gb|BG363100.1|BG363100
EST:     GTTACAGATGCGACATTGTATGCTTGCTTCTCTGTATATCCTAGTTGNTC                         TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGG
genomic: GTTACAGATGCGACATTGTATGCTTGCTTCTCTGTATATCCTAGTTGTTCgtaagttttt ... ttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGG
EST: gi|7029172|gb|AW458955.1|AW458955
EST:     GTTACAGATGCGACATTGTATGCTTGCTTCTCTGTATATCCTAGTTGTTC                         TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTGCCAGGGGATTTGG
genomic: GTTACAGATGCGACATTGTATGCTTGCTTCTCTGTATATCCTAGTTGTTCgtaagttttt ... ttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGG
EST: gi|193625489|gb|FK577477.1|FK577477
EST:     ATGCGACATTGTATGCTTGCTTCTCTGTATATCCTAGTTGTTC                         TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGG
genomic: ATGCGACATTGTATGCTTGCTTCTCTGTATATCCTAGTTGTTCgtaagttttt ... ttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGG
EST: gi|42723064|gb|CK768963.1|CK768963
EST:     GTTACAGATGCGACATTGTATGCTTGCTTCTCTGTATATCCTAGTTGTTC                         TGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGG
genomic: GTTACAGATGCGACATTGTATGCTTGCTTCTCTGTATATCCTAGTTGTTCgtaagttttt ... ttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatcaattcatatttgtagtatcatgatatggtaattatggtatgttggttacagTGATGCAAGGGTAATGTGGGATCAGAAGACAGGCCGTTCCAGGGGATTTGGATTTGTTTCTTTTCGGAATCAGCAG
     attcatattt  TA-rich tract