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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgagaacatgttaagttacttctgcagattacttttctctattcagaaattggcaatcagaattatactctcttttgatgttgatatttcatcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTGATGACAAATGACATTGCTGATAGCAATCCTGAGGATGCTGTACCCTGCT

Basic information

species Glycine max
transcript GLYMA07G03180.1
intron # 18
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|10845396|gb|BF068533.1|BF068533
EST:     TTCACCTGCTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAACCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|6502273|gb|AW203646.1|AW203646
EST:     TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|10235968|gb|BE804856.1|BE804856
EST:     TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|26045637|gb|CA783164.1|CA783164
EST:     TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|5760993|gb|AI966356.1|AI966356
EST:     TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|208098088|gb|GD893025.1|GD893025
EST:     TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|193710575|gb|FK648719.1|FK648719
EST:     TTCACCTGCTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAACCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|26047722|gb|CA784429.1|CA784429
EST:     TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|15199953|gb|BI424094.1|BI424094
EST:     TTCACCTGCTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAACCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|10847525|gb|BF070198.1|BF070198
EST:     TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|13252657|gb|BG363560.1|BG363560
EST:     TTCACCTGCTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAACCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|16346954|gb|BI972549.1|BI972549
EST:     TTCACCTGCTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAACCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: TTCACCTACTCTGGAAATGGCAGCGAAATGAGCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
EST: gi|15337518|gb|BI498174.1|BI498174
EST:     GCGTAACTCATCTGGCAAG                         GCCACTGCTACCTTGCAACCTCAGTTGTGGCAACCATCGAGTGGCATCCTG
genomic: GCGTAACTCATCTGGCAAGgtgtgagaac ... catcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaaattggcaatcagaattatactctcttttgatgttgatatttcatcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTGATGACAAATGACATTGCTGATAGCAATCCTGAGGATGCTGTACCCTGCT
                                  tgttgat  putative branch site (score: 4)
                                          tttcatcct  CT-rich tract
              agaattata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgagaacatgttaagttacttctgcagattacttttctctattcagaaattggcaatcagaattatactctcttttgatgttgatatttcatcctgtagGCCACTGCTACCTTGCAGCCTCAGTTGTGGCAACCATCGAGTGGCATCCTGATGACAAATGACATTGCTGATAGCAATCCTGAGGATGCTGTACCCTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG