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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcttcatcccctaagttgtagattattaacttgaacttttggtttcttgtagttttatctgtcggctggtgtttaagttattttacttttcttttacatatgaacccagCTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTGGACTTCTCATTACCTATAAGCATCAATGGGGAAGTAAACAATATTTTTC

Basic information

species Glycine max
transcript GLYMA10G41620.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G41620.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G49540.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatcttcatcccctaagttgtagattattaacttgaacttttggtttcttgtagttttatctgtcggctggtgtttaagttattttacttttcttttacatatgaacccagCTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTGGACTTCTCATTACCTATAAGCATCAATGGGGAAGTAAACAATATTTTTC
                    || | ||    | | |  ||||||        || | | | ||     |   |||   |||| ||||  |||  |  |   |       ||| ||     ||  |||||||| ||||| || || || ||||| |||||||||||||||||||||||  ||  ||  |  |  ||| ||  ||||| | || 
--------------------gt-gcttcccgattcg--cttttgtgccaaattattctcaactaaattcaattgtgagagtttttttggtttcatccttttt-------cagTTTACTTCTGTTTGTGAGCTTAAAGGCCACACGGACTGGATTCGGAGTTTGGACTTCTCATTACCGTTACACACAACAGAAGAAATACCCAATAGTATTA

upper sequence: GLYMA10G41620.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv01s0011g04130.t01 (Vitis vinifera), 3'ss of exon 5
gtatcttcatcccctaagttgtagattattaacttgaacttttggtttcttgtagttttatctgtcggctggtgtttaagttattttacttttcttttacatatgaacccagCTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTGGACTTCTCATTACCTATAAGCATCAATGGGGAAGTAAACAATATTTTTC
              |||  |   | ||||  |  |  | ||  |||||| || |  |||  |  || ||   |  | || || |||   |||| ||| |  ||||    ||| |||| ||||| |||||| |||||||||||||||||||||||||||||||||||||||| || |||||| ||| |||||  | |  || || | |||| |
---------gtatgtaatcttcggcttatccatcttca-ttacggtttcctgca--tttggccttctgcaact--tgaaattttttctgttttgtttcatttatgctagcagTTTGTTCATGCTTGTGAGTTAAAAGGGCATACAGATTGGATCCGGAGTTTGGACTTCTCCTTGCCTATATGCACCAATGATGGAACAAGCAGTCTTTTAC
















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|193478859|gb|FK447984.1|FK447984
EST:     GAGGATTGGATAACAAGATTCACCTTTATTGCGGTGGAAGGACCAGAAAG                         CTTGTACATGCATGTGAGCTAAAAGGGCATACAGATT
genomic: GAGGATTGGATAACAAGATTCACCTTTATTGCGGTGGAAGGACCAGAAAGgtatcttcat ... atgaacccagCTTGTACATGCATGTGAGCTAAAAGGGCATACAGATT
EST: gi|193717940|gb|FK653772.1|FK653772
EST:     GAGGATTGGATAACAAGATTCACCTTTATTGCGGTGGAAGGACCGGAAAG                         CTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTG
genomic: GAGGATTGGATAACAAGATTCACCTTTATTGCGGTGGAAGGACCAGAAAGgtatcttcat ... atgaacccagCTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTG
EST: gi|208071109|gb|GD868412.1|GD868412
EST:     TGGAAGGACCAGAAAG                         CTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTG
genomic: TGGAAGGACCAGAAAGgtatcttcat ... atgaacccagCTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTG
EST: gi|193619547|gb|FK572591.1|FK572591
EST:     GAGGATTGGATAACAAGATTCACCTTTATTGCGGTGGAAGGACCAGAAAG                         CTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTG
genomic: GAGGATTGGATAACAAGATTCACCTTTATTGCGGTGGAAGGACCAGAAAGgtatcttcat ... atgaacccagCTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatctgtcggctggtgtttaagttattttacttttcttttacatatgaacccagCTTGTACATGCATGTGAGCTAAAAGGGCATACAGATTGGATCCGGAGTTTGGACTTCTCATTACCTATAAGCATCAATGGGGAAGTAAACAATATTTTTC
                 tttaagttattttact  TA-rich tract