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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgttatgtattgtgctccttaaatatactaggaaaggaactgagagggtggctgggtttcattttttataattcactcctgcaatccatttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAATGAGGGTTTGAGAATCAACGGAGCAGTTGAACCGTTGCCTGAGGACTTT

Basic information

species Glycine max
transcript GLYMA15G05630.1
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|18735474|gb|BM528785.1|BM528785
EST:     ATTCTTTCGCCGCTTCTCTCTTTCCTTGTG                         GTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
genomic: ATTCTTTCGCCGCTTCTCTCTTTCCTTGTGgttagtttct ... tttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
EST: gi|213593221|gb|DB969907.1|DB969907
EST:     TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTG                         GTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
genomic: TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTGgttagtttct ... tttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
EST: gi|298187541|gb|HO034690.1|HO034690
EST:     TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTG                         GTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
genomic: TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTGgttagtttct ... tttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
EST: gi|213599567|gb|DB964366.1|DB964366
EST:     TTATTGCATCTCAGAGGCCGATTCTTTCGCCACTTCTCTCTTTCCTTGTG                         GTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
genomic: TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTGgttagtttct ... tttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
EST: gi|193533491|gb|FK490256.1|FK490256
EST:     TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTG                         GTGTTCTCGTGTTGCTCGTAACAAA-TGGTTGG
genomic: TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTGgttagtttct ... tttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGG
EST: gi|192298859|gb|FG987604.1|FG987604
EST:     TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTG                         GTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
genomic: TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTGgttagtttct ... tttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
EST: gi|298189793|gb|HO038196.1|HO038196
EST:     TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTG                         GTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA
genomic: TTATTGCATCTCAGAGGCCGATTCTTTCGCCGCTTCTCTCTTTCCTTGTGgttagtttct ... tttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagggtggctgggtttcattttttataattcactcctgcaatccatttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAATGAGGGTTTGAGAATCAACGGAGCAGTTGAACCGTTGCCTGAGGACTTT
                                         tccattt  CT-rich tract
             tttcattttttataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgttatgtattgtgctccttaaatatactaggaaaggaactgagagggtggctgggtttcattttttataattcactcctgcaatccatttatgtcagGTGTTCTCGTGTTGCTCGTAACAAAATGGTTGGAAGTGTTGACGCTTTGAATGAGGGTTTGAGAATCAACGGAGCAGTTGAACCGTTGCCTGAGGACTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- tgttatg
- - - - - - - tgctcct
- - - - - - - - - - - - - - - - -gaaaggaa
- - - - - - - - - - - - - - - - - - - - - -gagaggg
- - - - - - - - - - - - - - - - - - - - - - - - - -ggctggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cactcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatcca