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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgagagccttcttattcttctttctgcctttgggagggaagagggggagttgatcaagtagcatttattctcctattgctaattcgtaaccctcttgcagGTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCTCCAGCAATACGTCCTAGGGTGCGGGCCAGAAGAGGACAGGCTACAGATC

Basic information

species Glycine max
transcript GLYMA03G31510.1
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|213587215|gb|DB965919.1|DB965919
EST:     CTAGCGGAAAGCGCTTTCGCGACGACGTCGTTGATAATAGAGCTAAGCAT                         GTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCT
genomic: CTAGCGGAAAGCGCTTTCGCGACGACGTCGTTGATAATAGAGCTAAGCATgtaagaccac ... cctcttgcagGTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCT
EST: gi|209727968|gb|BW666688.1|BW666688
EST:     CTAGCGGAAAGCGCTTTCGCGACGACGTCGTTGATAATAGAGCTAAGCAT                         GTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCT
genomic: CTAGCGGAAAGCGCTTTCGCGACGACGTCGTTGATAATAGAGCTAAGCATgtaagaccac ... cctcttgcagGTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCT
EST: gi|213593007|gb|DB969861.1|DB969861
EST:     CTAGCGGAAAGCGCTTTCGCGACGACGTCGTTGATAATAGAGCTAAGCAT                         GTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCT
genomic: CTAGCGGAAAGCGCTTTCGCGACGACGTCGTTGATAATAGAGCTAAGCATgtaagaccac ... cctcttgcagGTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagttgatcaagtagcatttattctcctattgctaattcgtaaccctcttgcagGTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCTCCAGCAATACGTCCTAGGGTGCGGGCCAGAAGAGGACAGGCTACAGATC
                                      tcgtaac  putative branch site (score: 2)
                                            ccctcttgc  CT-rich tract
                 atttattct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgagagccttcttattcttctttctgcctttgggagggaagagggggagttgatcaagtagcatttattctcctattgctaattcgtaaccctcttgcagGTTTTTCATGGGCAACCCATGCCTACTACTATGCCTGCTGCTCCTCATCCTCCAGCAATACGTCCTAGGGTGCGGGCCAGAAGAGGACAGGCTACAGATC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - -gccttct
- - - - - - - - - - - -ctgcctt
- - - - - - - - - - - - - - - -gggaggg
- - - - - - - - - - - - - - - - - - - - gaggggg