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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgaattgttttacttctatctactgataaaactttgatagttataatattctttcagttttgatatttttaacgtttatgctttatctagtctaggatcagttgaaagttgttcaatgcatttcagctgttattccattctctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGATGGTTTGTTTAAA

Basic information

species Glycine max
transcript GLYMA08G13680.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatttgaattgttttacttctatctactgataaaactttgatagttataatattctttcagttttgatatttttaacgtttatgctttatctagtctaggatcagttgaaagttgttcaatgcatttcagctgttattccattctctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGATGGTTTGTTTAAA
      | ||||  |  | ||    |     |  |  ||| | |||  | ||||  || |  |  |    |  | ||    ||||| || ||   |  ||| |  | ||           ||| |  | | || | |||  |   |   | || ||||||| || |||||||| |||||||| || |||||||||||  ||||||| || ||||| || 
------gtattgaatatcgtcgtcttgactgtgca--tttcagagtgcttatatatttactttcct----tcatcaaaaaatatgcgttgtc--attaagggtttggtgggc--------atgtagcttacctctgatttgacaattgctttgtagATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGACGGCTTGTTCAAG

upper sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 5
gtatttgaattgttttacttctatctactgataaaactttgatagttataatattctttcagttttgatatttttaacgtttatgctttatctagtctaggatcagttgaaagttgttcaatgcatttcagctgttattccattctctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGATGGTTTGTTTAAA
           || | | || ||   | | ||     ||| ||  |  | ||   ||      || ||| |   | |   |  |   |||| |  | |   | || ||| |  | ||| |     ||| |  |    |||  |||||  |    ||||||| ||||||||||||||||| || || |||||||| || || |||||||| || ||||| 
-----------gtatcaatttta---atttatgctctttttattttgttcatgaactactgtgttggatttcaattatactc-taaattattttttttgcaaccacttggacat-gttaaccatgttttaatt----ttctcttctccat----agATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
















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|209714348|gb|BW665598.1|BW665598
EST:     CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAG                         ATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
genomic: CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAGgtatttgaat ... ctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
EST: gi|213615293|gb|DB963487.1|DB963487
EST:     CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAG                         ATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
genomic: CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAGgtatttgaat ... ctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
EST: gi|213589389|gb|DB961722.1|DB961722
EST:     CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAG                         ATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
genomic: CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAGgtatttgaat ... ctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
EST: gi|213590572|gb|DB968122.1|DB968122
EST:     CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAG                         ATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
genomic: CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAGgtatttgaat ... ctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
EST: gi|207808214|gb|GD779039.1|GD779039
EST:     CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAG                         ATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
genomic: CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAGgtatttgaat ... ctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
EST: gi|209717579|gb|BW679686.1|BW679686
EST:     CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAG                         ATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
genomic: CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAGgtatttgaat ... ctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGAT
EST: gi|209723170|gb|BW675116.1|BW675116
EST:     CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAG                         ATTGGCATTATTGATCCTGAATGTAGGTTGATTGGACTCCACTT
genomic: CAATGGGGGATGTTTCTGACCGGATAGGACGTCCCACAGATAATGGTCAGgtatttgaat ... ctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcagttgaaagttgttcaatgcatttcagctgttattccattctctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGATGGTTTGTTTAAA
                              ctgttattccattctc  CT-rich tract
                               tgttatt  TA-rich tract