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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattatataagtagttcttaaagttttttaaaaactatgctacatagtcactcaagtatttaaaaactcttaaaattaagaatgctggacgcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCTAACGTAGGAAACACGTACAATATAGCTCCATACTCCTCCATTCTTCTTG

Basic information

species Glycine max
transcript GLYMA06G10540.1
intron # 20
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|193311231|gb|FK273769.1|FK273769
EST:     TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTG                         GTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
genomic: TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTGgtaagttttt ... gcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
EST: gi|207813442|gb|GD782941.1|GD782941
EST:     CAAAGTTCTGCTGCCGGCACCTCCTAAAAAAGAGAAACTGGTTTCGTGTG                         GTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTT
genomic: CAAAGTTCTGCTGCCGGCACCTCC-AAAAAAGAGAAACTGGTTTCGTGTGgtaagttttt ... gcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTT
EST: gi|208310610|gb|GE104220.1|GE104220
EST:     TCGAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTG                         GTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
genomic: TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTGgtaagttttt ... gcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
EST: gi|208208486|gb|GE008477.1|GE008477
EST:     TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTG                         GTGGACACTAATCTCAAAT
genomic: TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTGgtaagttttt ... gcgtatgcagGTGGACACTAATCTCAAAT
EST: gi|193707205|gb|FK644943.1|FK644943
EST:     TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTG                         GTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
genomic: TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTGgtaagttttt ... gcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
EST: gi|207716049|gb|GD698419.1|GD698419
EST:     TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTG                         GTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
genomic: TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTGgtaagttttt ... gcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
EST: gi|193377305|gb|FK339233.1|FK339233
EST:     TCAAAGTTCGGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTG                         GTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
genomic: TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTGgtaagttttt ... gcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
EST: gi|193467299|gb|FK434372.1|FK434372
EST:     TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTG                         GTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT
genomic: TCAAAGTTCTGCTGCCGGCACCTCCAAAAAAGAGAAACTGGTTTCGTGTGgtaagttttt ... gcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtcactcaagtatttaaaaactcttaaaattaagaatgctggacgcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCTAACGTAGGAAACACGTACAATATAGCTCCATACTCCTCCATTCTTCTTG
        aagtatttaaaaactc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattatataagtagttcttaaagttttttaaaaactatgctacatagtcactcaagtatttaaaaactcttaaaattaagaatgctggacgcgtatgcagGTGGACACTAATCTCAAATCACCGGATGACTTTGTCCTTGATGGTGTCCCTAACGTAGGAAACACGTACAATATAGCTCCATACTCCTCCATTCTTCTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - ctatgct
- - - - - - - - - - - - - - - - - - - - - - - -tcactca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgct