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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataacctatttccttcggtaattcagttaaggaagcaactgttaaaattttattttgaaaaaaagttgagtgagttgtcagttcacacattacaatatatgatttaaatgaatctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCCATGGTTCCATCTATCAAG

Basic information

species Glycine max
transcript GLYMA03G22220.1
intron # 4
splice site 3'
intron type U2

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|254340129|gb|GR858254.1|GR858254
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|6964421|gb|AW433114.1|AW433114
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTGTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|192308232|gb|FK001302.1|FK001302
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|6718725|gb|AW306372.1|AW306372
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|208162826|gb|GD958938.1|GD958938
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|193512606|gb|FK471806.1|FK471806
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|192308233|gb|FK001303.1|FK001303
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|298185814|gb|HO030975.1|HO030975
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTCTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|4289246|gb|AI441448.1|AI441448
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|6964283|gb|AW432976.1|AW432976
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|208068170|gb|GD863682.1|GD863682
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|298168983|gb|HO020287.1|HO020287
EST:     AATTCTCGCAGGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|298164053|gb|HO013698.1|HO013698
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|151409001|gb|EV278809.1|EV278809
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
EST: gi|193416036|gb|FK376670.1|FK376670
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGG
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGG
EST: gi|207820624|gb|GD791734.1|GD791734
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGG
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGG
EST: gi|193344828|gb|FK310404.1|FK310404
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTAGTACCTTGGAAACCTTTGCCCGG
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGT-GT-CCTTGGAAACCTTTGCCCGG
EST: gi|41145861|gb|CK606072.1|CK606072
EST:     AATTCTCGCAAGATATCAATTGGCTGAGTTTGAG                         TTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC
genomic: AATTCTCGCAAGATATCAATTGGCTGAGTTTGAGgtaataacct ... tctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtgagttgtcagttcacacattacaatatatgatttaaatgaatctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCCATGGTTCCATCTATCAAG
                   acattacaatatatga  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaataacctatttccttcggtaattcagttaaggaagcaactgttaaaattttattttgaaaaaaagttgagtgagttgtcagttcacacattacaatatatgatttaaatgaatctgttgcagTTGTGTGTCCTTGGAAACCTTTGCCCGGAAACTGTGGAGGAAGCTATTGCCATGGTTCCATCTATCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA