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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaatgattatacaatggcttctttgtttgtttcatgagttttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAACGTACAG

Basic information

species Glycine max
transcript GLYMA16G06850.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G130230_T03 (Zea mays), 3'ss of exon 6
gtaataaatg-attatacaatggcttctttgtttgtttcatgagt-tttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAACGTACAG
|||||  ||| |  ||    |    |   | |   |||||  | |  ||| ||||| |||      |||  |   |  | || |   ||| | || ||||| ||||| || || || |||||||| ||||||||||||||||| ||||| ||  |||||
gtaatggatgtaacattttgtcaacttgctttacatttcacaaatacttgtctaattatt------ttttaaccaatatcatgtca-cagCTTGTTCTTCGTTTTGCCAACCGATTATTCTTGCCTCTTTGGAACCGCGACAATATTGATAATATACAG

upper sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaataaatgattatac-aatggcttctttgtttgtttcatgagttttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAACGTACAG
||||        | ||  |||| ||   |  |   | || |    |||     || | | ||   ||||  |    | | | ||| |||||||| || || ||||||||||| ||||||||||||||||||||||| ||||| || || ||||| |||
gtaacctgcttctctattaatgtctaaatcatcaatctcttt--ctttagactatcagtgattattttatctcgtgcatttcttg-cagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG

upper sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaataaatgattatacaatggcttctt-tgtttgtttcatgagttttgcctaatgatta-atccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAACGTACAG
        | |  | | | | ||||||  |  ||  || || | ||| | | ||| |  | ||    | ||   |   |  |    ||||||||| ||||| ||||| ||||| || || |||||||| |||||||||||||| ||||  |||||||||
-------gtaac-acatatttgcttctagtcattagtttattaatttagacaaataaagatataatctaacgcattcatcgttagtgcagTTGGTTCTTCGGTTTGCCAATCGCTTGTTTTTGCCACTATGGAACCGCGACAATATTGCAAACGTACAG

upper sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------gtaataaatgattatacaatggct-tctttgtttgtttcatga-gttttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAACGTACAG
                                         || |||| || ||| ||||  | ||||||| ||    ||   |   || ||  |||||  || | |||      ||||| ||| ||||||||||||||| |||||||||||  | || ||||| || |||||||| ||||||||||| || ||||||
gtaatacatgtatcataaaaattgtgtctttatttgataaaaaaaaataataataaaatgtttgtctttgtatgccctattttgaaatgtctgctgatttctctccttatgcc--acttacatttgcagTTGGTACTTCGTTTTGCAAATCGCATGTTTTTGCCCCTCTGGAACCGTGACAACATTGATAATGTACAG

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|16278453|gb|BI942912.1|BI942912
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|192310375|gb|FK002255.1|FK002255
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTACCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|16348194|gb|BI973789.1|BI973789
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCG
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCG
EST: gi|254331186|gb|GR843305.1|GR843305
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|37995859|gb|CF807448.1|CF807448
EST:     TTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: TTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|16348742|gb|BI974337.1|BI974337
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|17519559|gb|BM188601.1|BM188601
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcatgagttttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAACGTACAG
                                    atttaac  putative branch site (score: 3)
                               tttacatttaacttat  TA-rich tract