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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgtttgattgttatatttatatatatattacatattgtgtatacttatgaattgatttaggttgaatgtgctttaattttgaactgtgcttgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCACTGGGCGGCGGTTCGTGGTTCAACTCTAGCTGCTGATGTGCTCGTGGAGA

Basic information

species Glycine max
transcript GLYMA07G30380.1
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|209707175|gb|BW656793.1|BW656793
EST:     AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAG                         CATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
genomic: AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAGgtaattcccc ... tgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
EST: gi|21994353|gb|BQ785881.1|BQ785881
EST:     AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAG                         CATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
genomic: AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAGgtaattcccc ... tgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
EST: gi|208174967|gb|GD969502.1|GD969502
EST:     AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAG                         CATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCAATTGCA
genomic: AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAGgtaattcccc ... tgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCA-TTGCA
EST: gi|209703909|gb|BW661599.1|BW661599
EST:     AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAG                         CATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
genomic: AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAGgtaattcccc ... tgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
EST: gi|209709668|gb|BW673961.1|BW673961
EST:     AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAG                         CATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
genomic: AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAGgtaattcccc ... tgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
EST: gi|209722428|gb|BW668730.1|BW668730
EST:     AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAG                         CATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC
genomic: AATGGGCCTCGCTTAACAACTTCCACGACATTGCGCACTATCTCATTCAGgtaattcccc ... tgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgaattgatttaggttgaatgtgctttaattttgaactgtgcttgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCACTGGGCGGCGGTTCGTGGTTCAACTCTAGCTGCTGATGTGCTCGTGGAGA
                         ctttaat  putative branch site (score: 4)
                          tttaattttgaact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgtttgattgttatatttatatatatattacatattgtgtatacttatgaattgatttaggttgaatgtgctttaattttgaactgtgcttgttatgaagCATGGGGCGGATGTCAATGCTAAAGACAACATGCAACAAACGGCATTGCACTGGGCGGCGGTTCGTGGTTCAACTCTAGCTGCTGATGTGCTCGTGGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgtgc