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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggctcattacttattctttaattgaacacaccttaaatgctagttgctaactgttgatatatttacatgaagtaatctattggtatgtatgcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGTGTGCTCCGTGATCTCTCCCTTCAGTAGCAATGCATGATGATTGCCTATT

Basic information

species Glycine max
transcript GLYMA04G41600.1
intron # 10
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|51337279|gb|CO981145.1|CO981145
EST:     TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAG                         ATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
genomic: TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAGgtaaaatata ... gcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
EST: gi|254327482|gb|GR837105.1|GR837105
EST:     TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAG                         ATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
genomic: TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAGgtaaaatata ... gcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
EST: gi|254319864|gb|GR830888.1|GR830888
EST:     TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAG                         ATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
genomic: TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAGgtaaaatata ... gcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
EST: gi|254318082|gb|GR832250.1|GR832250
EST:     TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAG                         ATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
genomic: TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAGgtaaaatata ... gcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
EST: gi|18040670|gb|BM308964.1|BM308964
EST:     TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCCATTCTACAATTCAGAG                         ATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTC
genomic: TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAGgtaaaatata ... gcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTC
EST: gi|51338286|gb|CO982152.1|CO982152
EST:     TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAG                         ATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
genomic: TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAGgtaaaatata ... gcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
EST: gi|254325923|gb|GR838804.1|GR838804
EST:     TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAG                         ATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT
genomic: TGGAAGGTGCTAATGAGCACAAAAGAGAACTTCGATTCTACAATTCAGAGgtaaaatata ... gcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctaactgttgatatatttacatgaagtaatctattggtatgtatgcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGTGTGCTCCGTGATCTCTCCCTTCAGTAGCAATGCATGATGATTGCCTATT
                                            tgctttt  CT-rich tract
        ttgatatatttacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggctcattacttattctttaattgaacacaccttaaatgctagttgctaactgttgatatatttacatgaagtaatctattggtatgtatgcttttgcagATGCACTCAGCTGCTTTTGCGTTGCCTGCGTTCTTGAAGAGAGAAGTGAGTGTGCTCCGTGATCTCTCCCTTCAGTAGCAATGCATGATGATTGCCTATT

- - - - - - - - - - - - -acacacc
- - - - - - - - - - - - - - - - -taaatgc
- - - - - - - - - - - - - - - - - - - - - - tgctaac
- - - - - - - - - - - - - - - - - - - - - - - - - -tgttgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtatgt