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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttacaatttatttaagcaaattcattgtgtattggcttgtgggtttatagaacttatgctgagcccacttgtcccccccccaaacaaaaaaaaactgtcttttcattttctatttgtttttattttttactttaacttattgtatggacatttaattcatcttaatttgcagCCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAAG

Basic information

species Glycine max
transcript GLYMA20G30820.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G30820.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv18s0072g00310.t01 (Vitis vinifera), 3'ss of exon 7
gtatgttacaatttatttaagcaaattcattgt---gtattggcttgtgggttt----------atagaa----cttatgctgagccc--acttgtcccccccccaaacaaaaaaaaactgtctttt----cattttctatttgtttttattttttac--tttaacttattgtatggacatttaattcatcttaatttgcagCCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAAG
||| ||| | |   ||||  | || || |||||    | ||  ||| |   |||          |||| |    || ||| |  |     |||   |       ||| ||     | |   |   |     |||||  |      |||| |||  |||  | | |   |||||||    |||   |  ||   || | ||||||||||||| ||||||||||||||||||||||| || || ||
gtaggtttctaac-atttctgtaattttattgtctgatgttaactttttttttttccctccttgataggagtgtctcatgttatgtttgtactctccatgtgagcaagcatgtggatatgatgcatataagcatttctttcccacttttttttcctacaatatgatggattgtatatttattctttgtattggaaat-gcagCCTTGATGAGTTACAAGTGAACTACAATAATGAGCGCTCTAG
















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|193579113|gb|FK536749.1|FK536749
EST:     GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA                         CCTTGATGAATTACAAGTG
genomic: GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAAgtatgttaca ... taatttgcagCCTTGATGAATTACAAGTG
EST: gi|17400944|gb|BM177726.1|BM177726
EST:     GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA                         CCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAAGGTG
genomic: GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAAgtatgttaca ... taatttgcagCCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAA---G
EST: gi|151404880|gb|EV274694.1|EV274694
EST:     GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAA                         CCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAAAG
genomic: GGACGCAATATTTATGATGGTTGCTGTCAGCTGGACATTCAGTTCTCAAAgtatgttaca ... taatttgcagCCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAA-G


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttattttttactttaacttattgtatggacatttaattcatcttaatttgcagCCTTGATGAATTACAAGTGAACTACAATAATGACCGTTCAAG
                                          tcttaat  putative branch site (score: 3)
                                      ttcatctt  CT-rich tract
     ttttttactttaactt  TA-rich tract