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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagcttcgtaatttttttctcctcaattattccgaatttagggatttgaacaccaaaactcgtttcaattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTTGCAATTATTAAG

Basic information

species Glycine max
transcript GLYMA01G42920.2
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|209728800|gb|BW655455.1|BW655455
EST:     GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTC                         GAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
genomic: GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTCgtaagcttcg ... aattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
EST: gi|193419497|gb|FK383609.1|FK383609
EST:     GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTC                         GAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
genomic: GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTCgtaagcttcg ... aattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
EST: gi|193322968|gb|FK292032.1|FK292032
EST:     GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTC                         GAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
genomic: GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTCgtaagcttcg ... aattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
EST: gi|298197840|gb|HO039379.1|HO039379
EST:     GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTC                         GAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
genomic: GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTCgtaagcttcg ... aattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
EST: gi|193380598|gb|FK349228.1|FK349228
EST:     GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTC                         GAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
genomic: GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTCgtaagcttcg ... aattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
EST: gi|207754982|gb|GD727393.1|GD727393
EST:     GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTC                         GAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
genomic: GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTCgtaagcttcg ... aattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
EST: gi|193319741|gb|FK283526.1|FK283526
EST:     GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTC                         GAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT
genomic: GGAAGAGGCACTATGATTCCTTCGAGTTCGATGGCATCCAATATATTCTCgtaagcttcg ... aattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcaattattccgaatttagggatttgaacaccaaaactcgtttcaattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTTGCAATTATTAAG
                                         tttcaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagcttcgtaatttttttctcctcaattattccgaatttagggatttgaacaccaaaactcgtttcaattctgcagGAGGATCCTGTTCTTCTTGTACCCGAGGAGAAAGGCCAGAAGCCATATGTTGCAATTATTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC