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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtggtttacaaatgcatgtttaacttttgctaggtttctatttcagtgcattttgtatttatttttcattgaaacctcttcctttttctatatcctagGACACTTGCAATAAAAAAAGCAACCAACAGAATTTGGGCACAATCAAGTCATCAAACTTGTGCACTGAGATAATTGAGTATACAAGTCCAACAGAAACGG

Basic information

species Glycine max
transcript GLYMA05G32070.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os06g07210.1 (Oryza sativa), 3'ss of exon 8
--------------gtggtttaca--aatgcatgtttaacttttg---ctaggtttct---atttcagtgcattttgtatttatttttca----ttgaaacctcttcctttttctatatcctagGACACTTGCAATAAAAAAAGCAACCAACAGAATTTGGGCACAATCAAGTCATCAAACTTGTGCACTGAGATAATTGAGTATACAAGTCCAACAGAAACGG
                  ||   |  || |  |  || | ||| |   | || || ||   | |    |||    | || | |  || ||    || |  ||   | || ||  | |  |  |||| || |||||||  ||||| ||||| ||||||||||||||||| || || |||||||| |||||||||||||||||||| ||||| || || ||||| |
gtaaatttggtagcaaaattagtagcaaggagtacttgattttggacccaagattcctccaaatatgctgctggctatagtcaggttccaagtattcattccgaatgctcttgttgtcccacagGATACATGCAATAGGAAAAGTAACCAGCAGAATTTGGGCACAATTAAATCTTCAAACTTATGCACTGAGATAATTGAGTACACAAGCCCTACTGAAACTG

upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 8
gtggtttacaaat-gcatgtttaacttttgctaggtttctatttcagtgcattttgtatttatttttcattgaaacctcttcctttttctatatcctagGACACTTGCAATAAAAAAAGCAACCAACAGAATTTGGGCACAATCAAGTCATCAAACTTGTGCACTGAGATAATTGAGTATACAAGTCCAACAGAAACGG
   || | ||| |   |     |||  | | | |  | | |||    |||    | |  |||||| |    |||| ||  ||               ||||  |||| |||| |||||| |||||||| ||  |||| ||||| ||||| |||||||||||||| ||||| |||||||  |||||||| || ||||| |
---gtgtgcaattcataaagggaacagtagtttgcctacaattctgttgccacatatgcttatttct----gaaatctggtctgc------------agGATTCTTGTAATAGAAAAAGTAACCAACAAAACCTGGGGACAATTAAGTCTTCAAACTTGTGCACGGAGATTATTGAGTTCACAAGTCCCACTGAAACTG

upper sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 8
---------gtggtttacaaatgcatgtttaacttttgctaggtttctatttcagtgcattttgtatttatttttcattgaaacctcttcctttttctatatcctagGACACTTGCAATAAAAAAAGCAACCAACAGAATTTGGGCACAATCAAGTCATCAAACTTGTGCACTGAGATAATTGAGTATACAAGTCCAACAGAAACGG
         |||| |  |||||    ||    | | |  | | | ||| || |      |||    || |   ||  ||| ||   ||    ||  || ||| | |||| ||||||||||  ||||| ||||| |||||| |||||||||| || || |||||||||||||||||||||||||||| |||||| || || ||||| |
gtacatttagtggctatcaaataggagtacctcctatttttg-tctcttttgccaaaagtttccagttaaggatttcttgtaatggcta---ttaactgtatgc-agGATACTTGCAATAGGAAAAGTAACCAGCAGAATCTGGGCACAATTAAATCGTCAAACTTGTGCACTGAGATAATTGAGTTTACAAGCCCTACTGAAACTG

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|193322392|gb|FK288292.1|FK288292
EST:     AAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAG                         GACACTTGCAATAAAAAA-GCAACCAACAGAATTTGGGCACAATCAAGTCA
genomic: AAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAGgtggtttaca ... tatatcctagGACACTTGCAATAAAAAAAGCAACCAACAGAATTTGGGCACAATCAAGTCA
EST: gi|19345937|gb|BM890817.1|BM890817
EST:     AAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAG                         GACACTTGCAATNNNNNNNGCAACCAACAGAATTTGGGCACAATCAAGTCA
genomic: AAATTTTGAAGTCCCAGATAGAAACTGGAACTCCTTACATGCTTTTTAAGgtggtttaca ... tatatcctagGACACTTGCAATAAAAAAAGCAACCAACAGAATTTGGGCACAATCAAGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtgcattttgtatttatttttcattgaaacctcttcctttttctatatcctagGACACTTGCAATAAAAAAAGCAACCAACAGAATTTGGGCACAATCAAGTCATCAAACTTGTGCACTGAGATAATTGAGTATACAAGTCCAACAGAAACGG
                               cctcttcctttttcta  CT-rich tract
      attttgtatttatttt  TA-rich tract