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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctttcctttgttgttagttgttactatattgtccacttgaactcgtgccacgtggtgttgcactggatacattgtttcattgaaaattctgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAACTCATGGCTTAAAGGAAGCTTGGATATCATATCA

Basic information

species Glycine max
transcript GLYMA18G47960.1
intron # 9
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|9258099|gb|BE346246.1|BE346246
EST:     CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA                         GAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGC
genomic: CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAggtttgtgta ... tgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGC
EST: gi|31310629|gb|CD395832.1|CD395832
EST:     CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA                         GAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
genomic: CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAggtttgtgta ... tgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
EST: gi|192305184|gb|FG993950.1|FG993950
EST:     CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA                         GAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
genomic: CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAggtttgtgta ... tgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
EST: gi|209725123|gb|BW663063.1|BW663063
EST:     CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA                         GAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
genomic: CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAggtttgtgta ... tgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
EST: gi|11117943|gb|BF219536.1|BF219536
EST:     CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA                         GAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
genomic: CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAggtttgtgta ... tgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
EST: gi|254342710|gb|GR858872.1|GR858872
EST:     CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA                         GAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
genomic: CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAggtttgtgta ... tgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
EST: gi|31306857|gb|CD392060.1|CD392060
EST:     CCTGGTCCAATAGGAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA                         GAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
genomic: CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAggtttgtgta ... tgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
EST: gi|9983116|gb|BE657224.1|BE657224
EST:     CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGA                         GAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC
genomic: CCTGGTCCAATAGAAACATCAAATAATGCTGGATCAAGGGTTCCATCTGAggtttgtgta ... tgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgccacgtggtgttgcactggatacattgtttcattgaaaattctgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAACTCATGGCTTAAAGGAAGCTTGGATATCATATCA
                                          ttctgtctcc  CT-rich tract
                              tttcattgaaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctttcctttgttgttagttgttactatattgtccacttgaactcgtgccacgtggtgttgcactggatacattgtttcattgaaaattctgtctccacaGAAGCGTGTGCCATCTGAAAGGTGTGCAGAGCTGACTATTATTGCTGCAACTCATGGCTTAAAGGAAGCTTGGATATCATATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - tcctttg
- - - - - - - - - - - - - - - tgtccac
- - - - - - - - - - - - - - - - - - - - - ctcgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - ggtgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cactgga