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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttctattagttttcgtgattttctttattcatttcactttttagttaggcattttctcgaacagttttcgttcaagctttggatttttattgttttgattttttcagTGGAAATAGGCCTGAGAATTTTGCGATTGAAGGGCGTAATTTGAAATTCTCATTCACGACGAGGCAAACACAGGATGTACCGGTTCTTAAGGATTGTTCG

Basic information

species Glycine max
transcript GLYMA06G15900.1
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|207832520|gb|GD802664.1|GD802664
EST:     CGTCTCGTTGCTCCTCTTTATGCCACACTTCCCACTACAGCTACTACTAG                         TGGAAATAGGCCTGAGAATTTTGCGATTGAAGGGCGTAATTTGAAATTCTC
genomic: CGTCTCGTTGCTCCTCTTTATGCCACACTTCCCACTACAGCTACTACTAGgttctattag ... attttttcagTGGAAATAGGCCTGAGAATTTTGCGATTGAAGGGCGTAATTTGAAATTCTC
EST: gi|298172759|gb|HO020313.1|HO020313
EST:     CGTCTCGTTGCTCCTCTTTATGCCACACTTCCCACTACAGCTACTACTAG                         TGGAAATAGGCCTGAGAATTTTGCGATTGAAGGGCGTAATTTGAAATTCTC
genomic: CGTCTCGTTGCTCCTCTTTATGCCACACTTCCCACTACAGCTACTACTAGgttctattag ... attttttcagTGGAAATAGGCCTGAGAATTTTGCGATTGAAGGGCGTAATTTGAAATTCTC
EST: gi|193599787|gb|FK552912.1|FK552912
EST:     CGTCTCGTTGCTCCTCTTTATGCCACACTTCCCACTACAGCTACTACTAG                         TGGAAATAGGCCTGAGAATTT-GCGATTGAAGGGCGTAATTTGAAATTCTC
genomic: CGTCTCGTTGCTCCTCTTTATGCCACACTTCCCACTACAGCTACTACTAGgttctattag ... attttttcagTGGAAATAGGCCTGAGAATTTTGCGATTGAAGGGCGTAATTTGAAATTCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctcgaacagttttcgttcaagctttggatttttattgttttgattttttcagTGGAAATAGGCCTGAGAATTTTGCGATTGAAGGGCGTAATTTGAAATTCTCATTCACGACGAGGCAAACACAGGATGTACCGGTTCTTAAGGATTGTTCG
                                        ttttgat  putative branch site (score: 4)
                                              ttttttc  CT-rich tract
                         tttggatttttattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttctattagttttcgtgattttctttattcatttcactttttagttaggcattttctcgaacagttttcgttcaagctttggatttttattgttttgattttttcagTGGAAATAGGCCTGAGAATTTTGCGATTGAAGGGCGTAATTTGAAATTCTCATTCACGACGAGGCAAACACAGGATGTACCGGTTCTTAAGGATTGTTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG