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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagaaagagacactgagaacatgaaaataaagttttcatatgtctgctttaaaaaataataatctactctggtctttttgtgagataaatattttctatttatgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTGGAAAGAATGCATAACCATTTAACGGCTGCTGTAGTTTCAAATGATCCTT

Basic information

species Glycine max
transcript GLYMA05G01300.2
intron # 13
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|14259159|gb|BG882067.1|BG882067
EST:     AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAG                         GTTATCACGGACTACAAAAACAGTCAACTATCAGCTGTATTGGATGCTGTG
genomic: AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAGgtaaagaaag ... atgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
EST: gi|9898827|gb|BE607795.1|BE607795
EST:     AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAG                         GTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
genomic: AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAGgtaaagaaag ... atgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
EST: gi|8826963|gb|BE210693.1|BE210693
EST:     AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAG                         GTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
genomic: AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAGgtaaagaaag ... atgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
EST: gi|19346874|gb|BM891762.1|BM891762
EST:     TTTGATCTTGTACCAAAAGAAATATTTGGACCCTTTCAG                         GTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
genomic: TTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAGgtaaagaaag ... atgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
EST: gi|27427456|gb|CA938976.1|CA938976
EST:     AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAG                         GTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
genomic: AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAGgtaaagaaag ... atgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
EST: gi|8827894|gb|BE211624.1|BE211624
EST:     AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAG                         GTTATCACCGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
genomic: AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAGgtaaagaaag ... atgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
EST: gi|7926202|gb|AW832228.1|AW832228
EST:     AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAG                         GTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
genomic: AGGATAAGAATTTTGATCTTGTAACAAAAGAAATATTTGGACCCTTTCAGgtaaagaaag ... atgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
EST: gi|15203001|gb|BI425769.1|BI425769
EST:     GAAATATTTGGACCCTTTCAG                         GTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG
genomic: GAAATATTTGGACCCTTTCAGgtaaagaaag ... atgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taataatctactctggtctttttgtgagataaatattttctatttatgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTGGAAAGAATGCATAACCATTTAACGGCTGCTGTAGTTTCAAATGATCCTT
                                              tgttttc  CT-rich tract
                  tttttgtgagataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagaaagagacactgagaacatgaaaataaagttttcatatgtctgctttaaaaaataataatctactctggtctttttgtgagataaatattttctatttatgttttcagGTTATCACGGACTACAAAAACAGTCAACTATCAGTTGTATTGGATGCTGTGGAAAGAATGCATAACCATTTAACGGCTGCTGTAGTTTCAAATGATCCTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT