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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtctataagtcccaaacgttctattctaatagtaatgcttgagtcccactagaaacaaggttggaacctcacatcatgcagtttattacttttgtatatctattcgtctatagatatgtttgatgcatgtattgaattgctttgcacatttactgatgttttccttttctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGATGGCATGGGG

Basic information

species Glycine max
transcript GLYMA11G12120.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G12120.1 (Glycine max), 3'ss of exon 16
lower sequence: LOC_Os03g14690.1 (Oryza sativa), 3'ss of exon 16
gtatgtctataagtcccaaacgttctattctaatagtaatgcttgagtcccactagaaa--caaggttggaacctcacatcatgcagtttattacttttgtatatctattcgtctatagatatgtt-tgatgcatgtattgaattgctttgcacatttactgatgttttccttttctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGATGGCATGGGG
                                              || |  ||||| |  ||   |     | | || |    |||  |  ||||     ||    || |  || | ||| | |    |||||    |||  | ||     | | |   | |  || |  | ||   ||  ||||||||| || || ||||| ||||||||||||||||| ||||||||  |  | || |  ||
----------------------------------------------gtacttctagacattcagcatcaccgcattactttgaacagcct--tactccctcat---catcccacttttgatctataacaatgcactccttgt-tagccactaataatcgattaaattgtattctt---tatacagTCTTGCACACTCGGAGTTGTCAAGTGTATTCTATGACAAGGTTCTCCTCCTAGCTTTCGG

upper sequence: GLYMA11G12120.1 (Glycine max), 3'ss of exon 16
lower sequence: Vv03s0038g00290.t01 (Vitis vinifera), 3'ss of exon 16
gtatgtctataagtcccaaacgttctattctaatagtaatgcttgagtcccactagaaacaaggttggaacctcacatcatgcagtttattacttttgtatatctattcgtctatagatatgtttgatgcatgtattgaattgctttgcacatttactgatgttttccttttctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGATGGCATGGGG
                                                                                   | ||  | |  | |||        ||   | || ||||| |   ||  ||  ||     |    ||  ||    |  | |  || ||  || |   |||||||||||| |||||||||||||||||||||||||||||||| ||  |  |||| |||||
----------------------------------------------------------------------------------aatttcttcatctctgtggtcagtgtcccttttatatatgctgtttgtctgatttcgtcagtagagctaatcctgtcttttgctctttaactttgtacagTCTTGCTCACTCAGAGTTATCAAGTGTATTCTATGAGAAGGTCCTCCTCCTGGCTTGGGG
















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|7924839|gb|AW830865.1|AW830865
EST:     CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAG                         TCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
genomic: CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAGgtatgtctat ... ctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
EST: gi|209712504|gb|BW653687.1|BW653687
EST:     CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAG                         TCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
genomic: CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAGgtatgtctat ... ctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
EST: gi|207822639|gb|GD795694.1|GD795694
EST:     CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAG                         TCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
genomic: CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAGgtatgtctat ... ctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
EST: gi|58021625|gb|CX708366.1|CX708366
EST:     CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAG                         TCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
genomic: CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAGgtatgtctat ... ctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
EST: gi|254323448|gb|GR840145.1|GR840145
EST:     CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAG                         TCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAG-TTCTGATGAT
genomic: CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAGgtatgtctat ... ctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
EST: gi|209729739|gb|BW669839.1|BW669839
EST:     CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAG                         TCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT
genomic: CTTGGAGCAGTCTCTAATACAGCTTCTTACCTCCGTCTATGGGCCCTTAGgtatgtctat ... ctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatgtattgaattgctttgcacatttactgatgttttccttttctgtacccagTCTTGCTCATTCAGAGTTATCAAGTGTATTCTATGAGAAGGTTCTGATGATGGCATGGGG
                           tactgat  putative branch site (score: 2)
                                   ttttccttttctgtac  CT-rich tract
      tattgaatt  TA-rich tract