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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttactcatcattcccagtctctttcgtgattcatggatgccttggtttatagaatttatgaattttattttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAATGGCCAAAAACATTTATCGTTGTTTCTCATGCTAGAGAATTTTTAAACA

Basic information

species Glycine max
transcript GLYMA13G10530.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G10530.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g58020.2 (Oryza sativa), 3'ss of exon 6
gtta-ctcatcattcccagtctctttcgtgattcatggatgccttggtttatagaatttatgaattttattttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAATGGCCAAAAACATTTATCGTTGTTTCTCATGCTAGAGAATTTTTAAACA
|| |  | |  |     | | | |||| |   |    |  ||||  | | | |  ||           ||| | |||||||||||||||||||| |||||||| |||||| | ||| | ||  |  | ||||||||||| ||||| || ||||| || |||||||| || ||| | || |
gtaagtttaaaaacatgaatttgtttcatctctttctg--gcctatgctaacaagat-----------attattttgcagAATCATCTTGATCTCCATGCTGTGTTATGGTTAGAAACATATCTCCTGAAATGGCCAAAGACATTCATTGTTGTATCACATGCTAGGGAGTTTCTTAATA

upper sequence: GLYMA13G10530.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G013890_T01 (Zea mays), 3'ss of exon 6
gttactcatcattcccagtctctttcgtgattcatggatgccttggtttatagaatttatgaattttattttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAATGGCCAAAAACATTTATCGTTGTTTCTCATGCTAGAGAATTTTTAAACA
|| | |    | |    |  | |||     ||||         | | ||  | |   ||  |  | |||    || ||||| |||||||||||||||||||| |||||||| ||| | ||  |  | || |||||||| ||||| || ||||| || || || || || ||||| || |
gtaagttggaaatgtggggttatttttc--ttcac--------ttgcttgcacatgcta-aagctgtatcactttccagAACCATCTTGATCTTCATGCTGTGTTATGGCTAGAAACTTATCTCCTGAAGTGGCCAAAGACATTCATTGTTGTATCACACGCAAGGGAGTTTTTGAATA

upper sequence: GLYMA13G10530.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G64550.1 (Arabidopsis thaliana), 3'ss of exon 6
gttactcatcattcccag---tctctttcgtgattcatggatgccttggtttatagaatttatgaattttattttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAATGGCCAAAAACATTTATCGTTGTTTCTCATGCTAGAGAATTTTTAAACA
||   |  || ||   ||   || |||    |||  ||  ||     ||||| |   |||  |   |  | | || | | |||| ||||||||||| ||||||||||||||| | ||| | ||  |    || ||||||||||||||||| || ||||| |||||||| ||||| || ||||
gtgtgttttctttgtaaggtttcccttattagatcaatatattttcaggtttctgacattcttt--tcctctcttttggtagAACCATCTTGATCTCCATGCTGTCTTATGGTTAGAAACATATCTAACGAAGTGGCCAAAAACATTTATAGTCGTTTCCCATGCTAGGGAATTCTTGAACA

upper sequence: GLYMA13G10530.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g02160.t01 (Vitis vinifera), 3'ss of exon 6
gttactcatcattcccagt-ctctttcgtgattcatggatgc--cttggttta------------tagaatttatgaattttattttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAATGGCCAAAAACATTTATCGTTGTTTCTCATGCTAGAGAATTTTTAAACA
||   |||| |||   ||  ||  |||    |  ||| ||    |||||   |            | | |||| | | ||||||||| |||||||| |||||||| ||||||||||| |||||||| ||  | ||| |||| ||||||||||||||| |||| ||||||||||||||||||||||| || ||||
gtacatcatgattgatagaacttcttcagagtatatgtatattacttggcagaattgggtaaaacttgcattttttatttttatttttttgcagAACCATCTTGACCTTCATGCTGTTTTATGGCTGGAGACTTACCTGGTGAAATGGCCAAAAACAGTTATAGTTGTTTCTCATGCTAGAGAATTCTTGAACA

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|192303877|gb|FG998229.1|FG998229
EST:     CTCGTGCATTGTTTATAGAGCCTGATATATTGCTTCTTGATGAGCCTACG                         AATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAA
genomic: CTCGTGCATTGTTTATAGAGCCTGATATATTGCTTCTTGATGAGCCTACGgttactcatc ... tttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAA
EST: gi|13311652|gb|BG405303.1|BG405303
EST:     CTCGTGCATTGTTTATAGAGCCTGATATATTGCTTCTTGATGAGCCTACG                         AATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCTTACTTGGTTAAA
genomic: CTCGTGCATTGTTTATAGAGCCTGATATATTGCTTCTTGATGAGCCTACGgttactcatc ... tttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgtgattcatggatgccttggtttatagaatttatgaattttattttattgcagAATCATCTTGATCTTCATGCTGTCTTATGGCTTGAATCGTACTTGGTTAAATGGCCAAAAACATTTATCGTTGTTTCTCATGCTAGAGAATTTTTAAACA
                                       ttttatttt  CT-rich tract
                  ttggtttatagaattt  TA-rich tract