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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttgtgcttaagttttccccatttgtatgtgtatgatttttcttttattatttgtggttttagcttatgggtgtgctgtgttgttttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGTTGCCTTCCCTACATGTGTGTCTGTGAACAACACTGTCTGTCACTTCTCT

Basic information

species Glycine max
transcript GLYMA03G07420.3
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G07420.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0217g00020.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------------------------------------------gtaagttttgtgcttaagttttccccatttgtatgtgtatgatttttct------------tttattatttgtggttttagcttatgggtgtgctgtgttgttttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGTTGCCTTCCCTACATGTGTGTCTGTGAACAACACTGTCTGTCACTTCTCT
                                                                                     | || || |  |||  |||      |||   || || ||||||||              ||||| ||   | ||| ||   ||| ||| |  |||  | | |  ||| ||||||||||| |  ||||||||||| || |||| |||||| ||||| ||||||||||| || || ||  | ||||| ||||||||||||||||| || |||
gtgagccttctttttttacatagacattatattatgttgaatatttttttgataggcataatatgttcaatatttgagtatgccgatgtattttatttagatttcttgtgttttgttgggt-tgatttttgcaaagaaaaaggctttatcat--attgttataatctataggttt--tgttgtttatgtatgcagGCAAACTGGCAATATGTACAAGAACGTTAAGAAGAAGATTGAGAGGGGTGTTGCCTTTCCAACTTGCATTTCTGTTAACAACACTGTCTGTCATTTTTCT

upper sequence: GLYMA03G07420.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S119_137V6.1 (Physcomitrella patens), 3'ss of exon 2
gtaagttttgtgcttaagttttccccatttgtatgtgtatgatttttcttttattatttgtggttttagcttatgggtg-tgctg-tgttgttttaat-gaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGTTGCCTTCCCTACATGTGTGTCTGTGAACAACACTGTCTGTCACTTCTCT
|||    || |  | |  |   | | |||  || |||| || |  |    |    ||||  |  || |  || |   || ||||   |   ||||| | | || | ||| |   | |||||||||||  | || | ||| || || ||||| ||||| || || || || || ||||||||||||||||| ||||||||||||
gtattagttatattca--tcaactcaattgataggtgt-tgttgctgtcgtctgaatttacgtgttgaaattcttactgctgctaacggaattttactcgcagTCTAACAGCAGGTATGTACAAGAACTTTAAAAAGAAAATTGACAGAGGAGTTGCATTTCCCACTTGCGTATCTGTGAACAACACTGTATGTCACTTCTCT
















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|213616512|gb|DB965710.1|DB965710
EST:     AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA                         GCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
genomic: AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGAgtaagttttg ... tttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
EST: gi|192330310|gb|FK020580.1|FK020580
EST:     AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA                         GCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
genomic: AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGAgtaagttttg ... tttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
EST: gi|193520125|gb|FK474196.1|FK474196
EST:     AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA                         GCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
genomic: AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGAgtaagttttg ... tttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
EST: gi|7685524|gb|AW756172.1|AW756172
EST:     AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA                         GCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
genomic: AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGAgtaagttttg ... tttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
EST: gi|151408709|gb|EV278517.1|EV278517
EST:     AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA                         GCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
genomic: AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGAgtaagttttg ... tttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
EST: gi|213591699|gb|DB969799.1|DB969799
EST:     AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA                         GCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
genomic: AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGAgtaagttttg ... tttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
EST: gi|192299906|gb|FG991780.1|FG991780
EST:     AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGA                         GCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT
genomic: AAGGCAAAGATTGTTGACCTTTGCGAGAAAGGGGATTCGTATATTAGAGAgtaagttttg ... tttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttttattatttgtggttttagcttatgggtgtgctgtgttgttttaatgaagGCAAACTGGTAGCATGTACAAGAATGTGAAGAGGAAGATAGAGAGAGGTGTTGCCTTCCCTACATGTGTGTCTGTGAACAACACTGTCTGTCACTTCTCT
                                            ttttaat  putative branch site (score: 3)
                                         ttgtttt  CT-rich tract
     ttattatttgt  TA-rich tract