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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTGTGTTCTGTACACGGAGGTTCACGATCCAGATCAGCCACTTATCAACGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtctttactgacctgcattttagacaatacataaccattactcagttgctctttttctttttgcaacttcccaagttaattgaagatagtaatcagctttgtctgttctgttctttttatgtgagtacagg

Basic information

species Glycine max
transcript GLYMA18G48220.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G48220.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM5G860226_T01 (Zea mays), 5'ss of exon 3
-TCTTGTGTTCTGTACACGGAGGTTCACGATCCAGATCAGCCACTTATCAACGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtctttactgacctgcatt---ttagacaatacataaccattactcagttgctctttttctttttgcaacttcccaagttaattgaagatagtaatcagctttgtctgttctgttctttttatgtga-gtacagg
 || |||||  |||||||  || || || ||||||| ||||| ||  ||||||| ||||||||||||||||| ||| |||||||||| || |  |||||||| |    |  ||||    || |   ||  ||  |  || ||  |   |   ||||      ||         ||  ||   ||  |          |||      ||  |   |||    | ||     | | |||| 
ATCATGTGTCTTGTACACCCAGCTTGACAATCCAGAGCAGCCTCTGGTCAACGTCGAAGTTGTTGCTCATGTAACAAGACCTGAGCTCCGGAAAAGTGAGgt-aacaatccctgaatcccactcagttttaccgtggattacactgtttgccttgcataagctccaccctggtctctcctttttcttctcccgattcaatgcttgctgatt-cgctgacgatgttgcccaacgaacag-
















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|31310662|gb|CD395865.1|CD395865
EST:     CGTTGAAGTTGTTGCTCATGTTACACGACCCGAGCTGCGTACTAGTGAGG                         TATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
genomic: CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtcttta ... tgagtacaggTATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
EST: gi|10843378|gb|BF066678.1|BF066678
EST:     CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGG                         TATCAAATACTTTCCACTTCTCTTTCACTGTCCGTNCAGAAGCCAAAGCGA
genomic: CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtcttta ... tgagtacaggTATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
EST: gi|31561710|gb|CD487548.1|CD487548
EST:     CGTTGAAGTTGTTGCTCATGTTACACGACCCGAGCTGCGTACTAGTGAGG                         TATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
genomic: CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtcttta ... tgagtacaggTATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
EST: gi|120491032|gb|EH219199.1|EH219199
EST:     CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGG                         TATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
genomic: CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtcttta ... tgagtacaggTATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
EST: gi|22931950|gb|BU549089.1|BU549089
EST:     CGTTGAAGTTGTTGCTCATGTTACACGANNNGAGCTGCGTACTAGTGAGG                         TATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
genomic: CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtcttta ... tgagtacaggTATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
EST: gi|254328240|gb|GR835205.1|GR835205
EST:     CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAG-                         TATCAAATACTTTCCA
genomic: CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtcttta ... tgagtacaggTATCAAATACTTTCCA
EST: gi|254328241|gb|GR835206.1|GR835206
EST:     CGTTGAAGTTGTTGCTCATGTTACACGA-CTGAGCTGCGTACTAGTGAGG                         TATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
genomic: CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtcttta ... tgagtacaggTATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
EST: gi|22541196|gb|BU091039.1|BU091039
EST:     CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGG                         TATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA
genomic: CGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtcttta ... tgagtacaggTATCAAATACTTTCCACTTCTCTTTCACTGTCCGTCCAGAAGCCAAGGCGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTTGTGTTCTGTACACGGAGGTTCACGATCCAGATCAGCCACTTATCAACGTTGAAGTTGTTGCTCATGTTACACGACCTGAGCTGCGTACTAGTGAGGttagtctttactgacctgcattttagacaatacataaccattactcagttgctctttttctttttgcaacttcccaagttaattgaagatagtaatcagctttgtctgttctgttctttttatgtgagtacagg

- - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC