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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaggggggagggggacatgatgcaagctttgttttgtttcaattcattcttttatatagttgggaaaaaaattgagataatctttggccatgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAATATTTCCAGAGTATCCACAGGCATACCTACTTGAAGGGACCCATGGATA

Basic information

species Glycine max
transcript GLYMA12G09170.1
intron # 1
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|192314909|gb|FK010727.1|FK010727
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|209708597|gb|BW678774.1|BW678774
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|209708598|gb|BW678775.1|BW678775
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|192314910|gb|FK010728.1|FK010728
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|209727456|gb|BW651951.1|BW651951
EST:     GTGCGTCAAATCTCACAATCGATAACTAAACTCAGTCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: GTGCGTCAAATCTCACAATCGATAACTAAACTCA-TCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|151399013|gb|EV268884.1|EV268884
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|151395494|gb|EV265371.1|EV265371
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|19053340|gb|BM732007.1|BM732007
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|21638601|gb|BM139633.1|BM139633
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|10843020|gb|BF067140.1|BF067140
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|151404319|gb|EV274129.1|EV274129
EST:     TGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: TGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|41146434|gb|CK606645.1|CK606645
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|21601174|gb|BQ611505.1|BQ611505
EST:     ATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: ATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
EST: gi|298168608|gb|HO009538.1|HO009538
EST:     CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGA                         ATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA
genomic: CGTGCGTCAAATCTCACAATCGATAACTAAACTCATCGCCTTTATTCAGAgtaagctcat ... tgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcttttatatagttgggaaaaaaattgagataatctttggccatgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAATATTTCCAGAGTATCCACAGGCATACCTACTTGAAGGGACCCATGGATA
                   aaaaaaattgagataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaggggggagggggacatgatgcaagctttgttttgtttcaattcattcttttatatagttgggaaaaaaattgagataatctttggccatgatgtgcagATGTCGGAAGCACCATTCAGACCACGAGAAAAGCTTGCTGAGAAGCAAAAATATTTCCAGAGTATCCACAGGCATACCTACTTGAAGGGACCCATGGATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - -gggaggg
- - - - - - -gacatga
- - - - - - - - - - tgcaagc
- - - - - - - - - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctttggc