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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggggaactataccttttttttctgctggtattacaatagattgttttgtgaggaattgctcaactctttattcgctgccttacattctatagATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTTAGATGTTATTAACAAGATAAAGCGTAATCCTGATGATCGGCGAATCATT

Basic information

species Glycine max
transcript GLYMA06G01280.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G16370.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaggggaactataccttttttttctgc-tggtattacaatagattgttttgtgaggaattgctcaactctttattcgctgccttacattctatagATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTTAGATGTTATTAACAAGATAAAGCGTAATCCTGATGATCGGCGAATCATT
         |  || |||||   |     || |  |    |    | | ||  || | |||  |      |  |    ||  ||    || || || || || || ||||||  ||| ||  | || ||||| |||||||||||| ||||||| ||| |||| || |||   ||||||||||||||||| || || 
-------gtcagtaacttttcaatgcatatgttggttttttcttctctgttccgatggatttgttt-tggtgaaacatctttctcttgttttacagGTACACAGATATGCATGCTGATTATACTGGTCAAGGATTTGATCAACTTGTAGATGTAATTGACAAAATCAAGAACAATCCTGATGATCGGCGTATTATA

upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G34570.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaggggaactataccttttttttctgctggtattacaatagattgttttgtgaggaattgctcaactctttattcgctgccttacattctatagATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTTAGATGTTATTAACAAGATAAAGCGTAATCCTGATGATCGGCGAATCATT
    |  |       || | || |||  ||  | |     || ||          || ||      |     |||   | | |  |  |||| || || || || ||||||  ||| ||  | |||||||| |||||||| || |||||||| ||||||||||| |||   |||||||||||||| || || || 
----gtcagtagcttctctcttatctcttgacactttctgagttttggcaaaacagatttctgtgtcgagacattttgttcatctctctctacagGTACACAGATATGCATGCTGATTATACTGGCCAAGGATTTGATCAGCTCTTAGATGTAATTAACAAGATCAAGAACAATCCTGATGATCGACGGATTATA

upper sequence: GLYMA06G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 8
------------------------gtaggggaactataccttttttttctgctggtattacaatagattgttttgtgaggaattgctcaactctttattcgctgcct-tacattctatagATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTTAGATGTTATTAACAAGATAAAGCGTAATCCTGATGATCGGCGAATCATT
                        ||    |   |  ||  | ||||||| |  |||        | ||  |    |  |  || ||| | | || |     |||   || ||| || || |||| ||||||||||  ||||||  | |||||||| ||||||||  | |||||||||||||||||||| |||  ||||||  ||||||| || || || 
gttcgtggattttattctttgaaagtttatgtggtggactctatttttct-cgagtaaggattctgttttctcgaggtagtttttctccagttttaacctattgctcatatattttacagCTATATTGACATGCATGCTGACTATACTGGCCAAGGATTTGATCAGTTGTTAGATGTTATTAACAAGATCAAGAATAATCCGAATGATCGACGGATTATC

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|192311470|gb|FK005201.1|FK005201
EST:     GGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG                         ATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTT
genomic: GGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAGgtaggggaac ... cattctatagATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTT
EST: gi|192311469|gb|FK005200.1|FK005200
EST:     GGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAG                         ATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTT
genomic: GGTGACTTGGGACCTGTTTATGGGTTTCAATGGAGGCACTTTGGTGCCAGgtaggggaac ... cattctatagATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattgttttgtgaggaattgctcaactctttattcgctgccttacattctatagATATACTGACATGCATCATGACTACTCCGGCCAAGGGTTTGATCAACTTTTAGATGTTATTAACAAGATAAAGCGTAATCCTGATGATCGGCGAATCATT
                                       gccttac  putative branch site (score: 3)
                           tctttatt  TA-rich tract