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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTGCTTATGATGAATTAGCCTTGAAAAAGGCAGTAGCAAATCAACCCGTGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttcttaatcaattttacttgaaaagtaaaggactaaaggaacctgcattgtgagtatagagagtgagttaaaattagcaattcattatatttaa...

Basic information

species Glycine max
transcript GLYMA04G04400.1
intron # 3
splice site 5'
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|208227192|gb|GE022389.1|GE022389
EST:     ATATGGCAAAGAGTTTCAATTATATGAATCT                         GGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
genomic: ATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttct ... attttatcagGGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
EST: gi|58024799|gb|CX711540.1|CX711540
EST:     TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCT                         GGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
genomic: TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttct ... attttatcagGGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
EST: gi|208066602|gb|GD866065.1|GD866065
EST:     TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCT                         GGTATATTCGCAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
genomic: TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttct ... attttatcagGGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
EST: gi|7925963|gb|AW831989.1|AW831989
EST:     TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCT                         GGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
genomic: TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttct ... attttatcagGGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
EST: gi|58024179|gb|CX710920.1|CX710920
EST:     TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCT                         GGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
genomic: TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttct ... attttatcagGGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
EST: gi|58016625|gb|CX703367.1|CX703367
EST:     TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCT                         GGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
genomic: TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttct ... attttatcagGGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
EST: gi|22931543|gb|BU548682.1|BU548682
EST:     TTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCT                         GGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
genomic: TTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttct ... attttatcagGGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
EST: gi|58014188|gb|CX700930.1|CX700930
EST:     TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCT                         GGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT
genomic: TGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttct ... attttatcagGGTATATTCACAGGAACATGTGGGACATCAATAGACCATGGTGTTACAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCTGCTTATGATGAATTAGCCTTGAAAAAGGCAGTAGCAAATCAACCCGTGAGCGTTGCCATTGAAGCATATGGCAAAGAGTTTCAATTATATGAATCTgtaagtttcttaatcaattttacttgaaaagtaaaggactaaaggaacctgcattgtgagtatagagagtgagttaaaattagcaattcattatatttaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG