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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgtgctgttctataattactaattagttttttctagatatgcactgacagtcacatttctatatttgttttacttatattatctgtattgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA

Basic information

species Glycine max
transcript GLYMA20G31980.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G31980.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G48850.3 (Arabidopsis thaliana), 3'ss of exon 10
gtatttgtgctgttctataattactaattagttttttctagatatgcactgacagtcacatttcta-tatttgttttacttatattatctgtattgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA----
                    |   ||| |  | | ||  | || |  |     |   ||||||||  |    |  || || |||||      |||   |   |||| || || || ||||| ||||| || || |||||| |||| ||||||||||||||||||||||||    
------------------gttagttaagtcttgtatttaatatgtcaataataaactacatttctcctgagagaattcctaatattggtca-atttgta--tagGGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGAGTAA

upper sequence: GLYMA20G31980.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G48850.2 (Arabidopsis thaliana), 3'ss of exon 10
gtatttgtgctgttctataattactaattagttttttctagatatgcactgacagtcacatttcta-tatttgttttacttatattatctgtattgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA
                    |   ||| |  | | ||  | || |  |     |   ||||||||  |    |  || || |||||      |||   |   |||| || || || ||||| ||||| || || |||||| |||| ||||||||||||||||||||||||
------------------gttagttaagtcttgtatttaatatgtcaataataaactacatttctcctgagagaattcctaatattggtca-atttgta--tagGGAGGGATCTCAAATGGTGAAATAATAAACATGAGAGTAGCCTTCAAGCCAACATCAACAATTGGA

upper sequence: GLYMA20G31980.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv13s0019g04190.t01 (Vitis vinifera), 3'ss of exon 10
gtatttgtgctgttctataattactaattagtttttt---ctagatatgcactgacagtcacatttctatatttgttttactt-atattatctgtattgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA
||| ||||  ||| || |||  | |  |  || |||     ||||| ||   || ||      |||    || |    | ||| | ||  | | |  |||||| ||||| ||||| || || ||||||||||| || || ||||||| ||||||||||||||| |||||||||
gtacttgttatgtactttaagcatttgtatgtgtttgggattagatttgttatg-caccattttttaagcatcttcagtccttgagatcgtttctgctgacaaacagGGCGGAATATCAAACGGGGAAATCATAAACATAAGAATAGGTTTCAAGCCAACATCTACAATTGGA

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|58017502|gb|CX704244.1|CX704244
EST:     ATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAG                         GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
genomic: ATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAGgtatttgtgc ... tgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
EST: gi|19052637|gb|BM731304.1|BM731304
EST:     GAACAAATCGCTCTGGTGGGATACAG                         GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
genomic: GAACAAATCGCTCTGGTGGGATACAGgtatttgtgc ... tgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
EST: gi|120533980|gb|EH262113.1|EH262113
EST:     ATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAG                         GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
genomic: ATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAGgtatttgtgc ... tgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
EST: gi|6668053|gb|AW279504.1|AW279504
EST:     ATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAG                         GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
genomic: ATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAGgtatttgtgc ... tgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
EST: gi|254340229|gb|GR858354.1|GR858354
EST:     ATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAG                         GGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA
genomic: ATGAACATGGAAACACAAGAACAAGAACAAATCGCTCTGGTGGGATACAGgtatttgtgc ... tgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgacagtcacatttctatatttgttttacttatattatctgtattgacaatcagGGTGGAATTTCCAATGGGGAAATCATTAATATGAGAATAGCTTTCAAGCCAACATCAACAATTGGA
                                          tattgac  putative branch site (score: 2)
           atttctatatttgttt  TA-rich tract