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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcaataagttctttttcctggatttttctctttgttttcccagataatgacttaaaattttgatgtgtcaaaattcagGTATATATACATTCCTCTTGGGGGATCTAAGAAAAAGCTACTAAATGTGTGGGTTGTTTTCACATTTGTTGCAATCTGGCATGATTTAGAGTG

Basic information

species Glycine max
transcript GLYMA10G41940.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G41940.2 (Glycine max), 3'ss of exon 13
lower sequence: AT1G57600.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------gtgcaataagttctttttcctggatttttctctttgttttcccagataatgacttaaaattttgatgtgtcaaaattcagGTATATATACATTCCTCTTGGGGGATCTAAGAAAAAGCTACTAAATGTGTGGGTTGTTTTCACATTTGTTGCAATCTGGCATGATTTAGAGTG
                             | |||          |  |   ||  || ||||| |  |   || |  | |  ||  |  || |  | |     || |||||||| || |||||||| || |||||    | |||  | || |||||||||||||| || ||||||||||| || ||||||||||| || ||
gtgagaatgtttaacactaaacttctggtttcaacttaaaagcgtcgcaacatcattttcttt-taatgttagctcgtaaaatagtaagttaacatcttcc--tttagGTATATGTATATTCCTCTAGGTGGATCACGAAGAAAATTTCTGAATGTGTGGGTTGTATTTACATTTGTTGCCATGTGGCATGATTTGGAATG

upper sequence: GLYMA10G41940.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv00s0581g00010.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------------------------------------------------gtgca-ataagttctttttcctggatttttctctttgttttcccagataatgacttaaaatt--ttgatgtgt-caaaattc------agGTATATATACATTCCTCTTGGGGGATCTAAGAAAAAGCTACTAAATGTGTGGGTTGTTTTCACATTTGTTGCAATCTGGCATGATTTAGAGTG
                                                                           || ||  ||  ||| | ||   || | |        | ||    | ||| ||  ||| | ||  || ||   | |||||||       ||||| || ||||||||||||||||| ||| ||| |||||| || ||  | |||||| | ||||||||||||||  | |||||||| ||||||||
gtacgctttctacgttttcacatttagcatatcttgtattcctgtcatttttatttttacaaaatttgtttttaaGTACATGTACATTCCTCTTGGAGGGTCTGAGAGAAAGCTTCTGAATATA-TGGGTTATAGTTATTTAATTCTTGCAAAATTTGTTTTTAGGTACATGTACATTCCTCTTGGGGGCTCTCAGAGAAAGCTTCTGAACATATGGGTTATATTCACATTTGTTGCTGTATGGCATGACTTAGAGTG

upper sequence: GLYMA10G41940.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv00s0449g00010.t01 (Vitis vinifera), 3'ss of exon 7
---------------------------------------------------------------------------gtgca-ataagttctttttcctggatttttctctttgttttcccagataatgacttaaaatt--ttgatgtgt-caaaattc------agGTATATATACATTCCTCTTGGGGGATCTAAGAAAAAGCTACTAAATGTGTGGGTTGTTTTCACATTTGTTGCAATCTGGCATGATTTAGAGTG
                                                                           || ||  ||  ||| | ||   || | |        | ||    | ||| ||  ||| | ||  || ||   | |||||||       ||||| || ||||||||||||||||| ||| ||| |||||| || ||  | |||||| | ||||||||||||||  | |||||||| ||||||||
gtacgctttctacgttttcacatttagcatatcttgtattcctgtcatttttatttttacaaaatttgtttttaaGTACATGTACATTCCTCTTGGGGGCTCTGAGAGAAAGCTTCTGAATATA-TGGGTTATAGTTATTTAATTCTTGCAAAATTTGTTTTTAGGTACATGTACATTCCTCTTGGGGGCTCTCAGAGAAAGCTTCTGAACATATGGGTTATATTCACATTTGTTGCTGTATGGCATGACTTAGAGTG

upper sequence: GLYMA10G41940.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv00s0507g00020.t01 (Vitis vinifera), 3'ss of exon 7
---------------------------------------------------------------------------gtgca-ataagttctttttcctggatttttctctttgttttcccagataatgacttaaa---attttgatgtgtcaaaattc------agGTATATATACATTCCTCTTGGGGGATCTAAGAAAAAGCTACTAAATGTGTGGGTTGTTTTCACATTTGTTGCAATCTGGCATGATTTAGAGTG
                                                                           || ||  ||  ||| | ||   || | |        | ||    | |||  |   || |   ||||   | |  |||||||       ||||| || ||||||||||||||||| ||| ||| |||||| || ||| | |||||| | |||||||||||||| || ||||| || ||||||||
gttagctttctactttttcacttttagcatttcttgtattcctgttatttttatttttacaaaatttgtttttaaGTACATGTACATTCCTCTTGGGGGCTCTGAGAGAAAGCTTCTGAATATATGGGTCTATAGTTATTTCATTCTTACAAAATTTGTTTTTAGGTACATGTACATTCCTCTTGGGGGCTCTCAGAGAAAGCTTCTGAATATATGGGTTATATTCACATTTGTTGCTATATGGCACGACTTAGAGTG

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|192294129|gb|FG986218.1|FG986218
EST:     GAAGGCTTTTGGAAAAACTGGCATGCTTCCTTCAACAAGTGGCTTGTGAG                         GTATATATACATTCCTCTTGGGGGATCTAAGAAAAAGCTACTAAATGTGTG
genomic: GAAGGCTTTTGGAAAAACTGGCATGCTTCCTTCAACAAGTGGCTTGTGAGgtgcaataag ... caaaattcagGTATATATACATTCCTCTTGGGGGATCTAAGAAAAAGCTACTAAATGTGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctctttgttttcccagataatgacttaaaattttgatgtgtcaaaattcagGTATATATACATTCCTCTTGGGGGATCTAAGAAAAAGCTACTAAATGTGTGGGTTGTTTTCACATTTGTTGCAATCTGGCATGATTTAGAGTG
                                  ttttgat  putative branch site (score: 4)
                    ataatgacttaaaatt  TA-rich tract