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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtgattctctgcttatcctattctttgtattgtgtttttcgtggtccaagatatgatttccgtgaatcgtgttgttgatgtgttgctaatggttttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTTTTCTTACTCTTCAAGTTTTTATCTAAGGACTTGG

Basic information

species Glycine max
transcript GLYMA06G08620.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G08620.3 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os05g36070.2 (Oryza sativa), 3'ss of exon 3
gtaagtagtgattctctgcttatcctattctt--------------tgtattgtgtttttcgt--ggtccaagatatgatttccgtgaatcgtgttg-ttgatgtgttgctaatggttttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTTTTCTTACTCTTCAAGTTTTTATCTAAGGACTTGG
||||| | |     |   ||| |  ||| | |              |||  |  ||| ||| |          | |||     |  |    |  |   || || | |  ||  |  || |  |||||||||||||||| |||||||| ||||| ||||| || || || ||||| ||| | ||||| || ||| | || ||||||||| | || || || ||||
gtaagcaatatgcttgaacttgttttatccatctgctgggcactaatgtgataggttattcatccaacttcctacatgtacctctggctctgaataacttaatttttgcctttttcttatatagGAGACAATGTCCAAAGAACATGCTATGCGGTTTCCTTTGGTGGGAAGTGCTATGCTTTTGTCCCTCTTCCTTCTATTCAAGTTTCTCTCAAAAGATTTGG

upper sequence: GLYMA06G08620.3 (Glycine max), 3'ss of exon 3
lower sequence: AT2G03120.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtagtgattctctgcttatcctattctttgtattgtgtttttcgtggtccaagatatgatttccgtgaatcgtgttgttgatgtgttgctaatggttttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTTTTCTTACTCTTCAAGTTTTTATCTAAGGACTTGG
|||||     |        | |   | || ||| |  |  ||    |    | | | ||  ||| |     ||| || |  ||| | ||     ||||||   | ||||||| ||||| || ||||||||||||||||| || || ||||||||||| ||| |  | |||||||||||| | ||||||||| | || ||||||||||
gtaag--acaaagacgcaatcagattgtttttttttattagtgaaacaattttccaaattcgatct----aaattgtttctttggtttga----aatggt---gtagGAGACGATGTCAAAAGAACATGCCATGCGTTTCCCATTGGTTGGGAGTGCTATGCTTCTCTCACTTTTCTTATTGTTCAAGTTTCTCTCAAAGGACTTGG

upper sequence: GLYMA06G08620.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 3
------gtaagtagt-gattctctgcttatcctattctttgtattgtgtttttcgtggtccaagatatgatttccgtgaatcgtgttgttgatgtgttgctaatggttttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTTTTCTTACTCTTCAAGTTTTTATCTAAGGACTTGG
        || |||   | |  |||| | || |||| | | |    | |||||| || | |  || |   | ||||  |||       ||||| ||||        |  |||||||||||||||| ||||||||||| ||||| ||||| |||||||||||||||||| | || ||||| ||| | |||||||||||| |||| || |||||||
gtaagaacaattagccaagttcctgcctttcttatt-tctatgccatatttttcatgattctggaaagcctgtccg--aatt------ttgatatgtt-----cattcatgcagGAGACAATGTCTAATGAACATGCTATGCGCTTTCCTTTTGTTGGGAGTGCAATGCTGTTATCACTATTCCTTCTCTTCAAGTTTCTATCAAAAGACTTGG

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|193629979|gb|FK573285.1|FK573285
EST:     TCACTGTGTTTGTGGGCTGTTACCGCTCCGTTAAACCAACCCCACCAACT                         GAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
genomic: TCACTGTGTTTGTGGGATGTTACCGCTCCGTTAAACCAACCCCACCAACTgtaagtagtg ... ggttttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
EST: gi|6072670|gb|AW102057.1|AW102057
EST:     TCACTGTGTTTGTGGGATGTTACCGCTCCGTTAAACCAACCCCACCAACT                         GAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
genomic: TCACTGTGTTTGTGGGATGTTACCGCTCCGTTAAACCAACCCCACCAACTgtaagtagtg ... ggttttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
EST: gi|213600256|gb|DB964336.1|DB964336
EST:     TCACTGTGTTTGTGGGATGTTACCGCTCCGTTAAACCAACCCCACCAACT                         GAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA
genomic: TCACTGTGTTTGTGGGATGTTACCGCTCCGTTAAACCAACCCCACCAACTgtaagtagtg ... ggttttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaagatatgatttccgtgaatcgtgttgttgatgtgttgctaatggttttgcagGAGACAATGTCCAATGAACATGCCATGCGTTTTCCCTTTGTTGGGAGTGCAATGTTATTGTCACTTTTCTTACTCTTCAAGTTTTTATCTAAGGACTTGG
                                      tgctaat  putative branch site (score: 2)
     atatgattt  TA-rich tract