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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctactatcataactctcttttatcttttttctgtatgtaacaaagcataatagtcattacaagagactgatagctgccttgaatgtttttccagACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGATTTAATTTTCATCGTGAAAGACGTCAGAATGTACAGTCAAGACAAG

Basic information

species Glycine max
transcript GLYMA17G11220.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G11220.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os02g55410.2 (Oryza sativa), 3'ss of exon 12
---------gtctactatcataactctcttttatctt----ttttctgtatgtaacaa-------agcataatagtcattacaagagactgatagctgccttgaatgtttttcc--agACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGATTTAATTTTCATCGTGAAAGACGTCAGAATGTACAGTCAAGACAAG
            |  ||| ||     | |  ||| ||    ||||    |||||  ||       ||| | |||  ||   |||     |     |    |  | || |  |||  |||||||||| |||||||||||  |||||||||| || |||||||| |||||| |||| || || || ||||| |||||||||||   ||||||||||
gtcagtcaaagtttttattattgacttgtactattttcatattttgaaaatgtattaacagttctagccttatatgcaaggcaatcagtttgacacattttctattgctactcctcagACTGCACAAGATAACATTGATCTGCAGACAACCATCCTTTCTAGATTTGATCTAATCTTTATTGTTAAAGATGTCAGAATGTATGATCAAGACAAG

upper sequence: GLYMA17G11220.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv11s0149g00130.t01 (Vitis vinifera), 3'ss of exon 11
gtctactatcataactctcttttatcttttttctgtatgtaacaaag-cataatagtcattacaagagactgatagctgccttgaatgttt---ttccagACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGATTTAATTTTCATCGTGAAAGACGTCAGAATGTACAGTCAAGACAAG
||| |    |     |||   | |  ||| |||| ||  |   | |  |||  |  | |||  |  |  | |  | ||      | |   |   ||||||||||| || |||||||| |||||||||||||| |||||||| || ||||| || |||||||| ||||||||  |||| ||||||||||| || |||
gtccatggccccttttcttcctcagatttgttctttacttcttatattcatgcttatgatt-tactaagcaggcaactaataaaactacatacattccagACTGCTCAAGATAACATCGACTTGCAGACAACAATTCTTTCAAGATTTGACTTGATTTTCATTGTGAAAGATATCAGGATGTACAGTCAGGATAAG
















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|193427369|gb|FK393493.1|FK393493
EST:     CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAG                         ACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGAT
genomic: CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAGgtctactatc ... gtttttccagACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGAT
EST: gi|207793961|gb|GD766175.1|GD766175
EST:     CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAG                         ACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGAT
genomic: CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAGgtctactatc ... gtttttccagACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGAT
EST: gi|207785275|gb|GD759026.1|GD759026
EST:     CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAG                         ACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGAT
genomic: CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAGgtctactatc ... gtttttccagACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGAT
EST: gi|7924143|gb|AW830169.1|AW830169
EST:     CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAG                         ACTGCACAGGATAACATTNGACTTGCAGACAACTATTCTTTCTAGGTTTGA
genomic: CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAGgtctactatc ... gtttttccagACTGCACAGGATAACATT-GACTTGCAGACAACTATTCTTTCTAGGTTTGA
EST: gi|193390513|gb|FK356433.1|FK356433
EST:     AGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAAG                         ACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGA
genomic: AGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAA-Ggtctactatc ... gtttttccagACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGA
EST: gi|193489060|gb|FK456757.1|FK456757
EST:     CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAG                         ACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGAT
genomic: CAGTTCTTGCTGCTGCCAACCCTCCATCAGGCCGATACGATGATCTTAAGgtctactatc ... gtttttccagACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaagcataatagtcattacaagagactgatagctgccttgaatgtttttccagACTGCACAGGATAACATTGACTTGCAGACAACTATTCTTTCTAGGTTTGATTTAATTTTCATCGTGAAAGACGTCAGAATGTACAGTCAAGACAAG
                         gactgat  putative branch site (score: 3)
                                            tgtttttcc  putative PPT
                                          aatgttttt  TA-rich tract