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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatccagtcatgccaaatgattttttttttacctttatagcaatgattttatgtactaaatcccttgttgttgcagCTGCATTGATGTCTGCTATTTATGAAGAAAATAAGGATCAAGATGGCTTTCTTTACATGACTTACAGTGGAGAGAACACCTTCGGATCCCACTAGGCATA

Basic information

species Glycine max
transcript GLYMA09G00630.2
intron # 5
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|213594272|gb|DB973597.1|DB973597
EST:     TGCAGAGAAGGCTATTTTTGTTTTCATCAATAACACTCTGCCTCCAACTG                         CTGCATTGATGTCTGCTATTTATGAAGAAAATAAGGATCAAGATGGCTTTC
genomic: TGCAGAGAAGGCTATTTTTGTTTTCATCAATAACACTCTGCCTCCAACTGgtaagtatcc ... gttgttgcagCTGCATTGATGTCTGCTATTTATGAAGAAAATAAGGATCAAGATGGCTTTC
EST: gi|208259720|gb|GE059750.1|GE059750
EST:     TGCAGAGAAGGCTATTTTTGTTTTCATCAATAACACTCTGCCTCCAACTG                         CTGCATTGATGTCTGCTATTTATGAAGAAAAT
genomic: TGCAGAGAAGGCTATTTTTGTTTTCATCAATAACACTCTGCCTCCAACTGgtaagtatcc ... gttgttgcagCTGCATTGATGTCTGCTATTTATGAAGAAAAT
EST: gi|33389770|gb|CA852977.1|CA852977
EST:     TGCAGAGAAGGCTATTTTTGTTTTCATCAATAACACTCTGCCTCCAACTG                         CTGCATTGATGTCTGCTATTTATGAAGAAAATAAGGATCAAGATGGCTTTC
genomic: TGCAGAGAAGGCTATTTTTGTTTTCATCAATAACACTCTGCCTCCAACTGgtaagtatcc ... gttgttgcagCTGCATTGATGTCTGCTATTTATGAAGAAAATAAGGATCAAGATGGCTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttttttacctttatagcaatgattttatgtactaaatcccttgttgttgcagCTGCATTGATGTCTGCTATTTATGAAGAAAATAAGGATCAAGATGGCTTTCTTTACATGACTTACAGTGGAGAGAACACCTTCGGATCCCACTAGGCATA
                                tactaaa  putative branch site (score: 1)
                                       tcccttgtt  CT-rich tract
                        attttatgtactaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtatccagtcatgccaaatgattttttttttacctttatagcaatgattttatgtactaaatcccttgttgttgcagCTGCATTGATGTCTGCTATTTATGAAGAAAATAAGGATCAAGATGGCTTTCTTTACATGACTTACAGTGGAGAGAACACCTTCGGATCCCACTAGGCATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA