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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttgttcatgagaaattccctccacccacccccatctttctcagttttttatatttgttttttctttttatctttggtcttatgttttaatatccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG

Basic information

species Glycine max
transcript GLYMA07G06590.1
intron # 4
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|254340071|gb|GR858196.1|GR858196
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|18039738|gb|BM308032.1|BM308032
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|9203772|gb|BE329996.1|BE329996
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|37996752|gb|CF808341.1|CF808341
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGTCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|17964295|gb|BM271032.1|BM271032
EST:     TGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|10844117|gb|BF067454.1|BF067454
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGTCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|8282719|gb|BE020280.1|BE020280
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|10847099|gb|BF069865.1|BF069865
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGTCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|10845936|gb|BF068951.1|BF068951
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|15815279|gb|BI787554.1|BI787554
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
EST: gi|9258280|gb|BE346427.1|BE346427
EST:     TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAG                         CTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA
genomic: TGAGCTGCCACGATATGGTCTTGAAGTAGGGCTTACAAATTATGCTGCAGgtactttgtt ... ccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatatttgttttttctttttatctttggtcttatgttttaatatccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG
                                    ttttaat  putative branch site (score: 3)
     tttgttttttcttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactttgttcatgagaaattccctccacccacccccatctttctcagttttttatatttgttttttctttttatctttggtcttatgttttaatatccgtgtccagCTTATTGCACTGGTCTCCTGTTGGCCCGAAGAGTCCTCAAAACACTTGAAATGGATGAGGAGTATGAAGGAAATGTTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA