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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgcaaacatctaactatttcttagagtttgttattcctgtttattttcttcagccttctgtaatcttcattgttttaattgtgttcatttttgataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGAAGGGCCAACTGATTGTAGTTCTGTTTCATGGCTGGACTAAAAATTTCAT

Basic information

species Glycine max
transcript GLYMA20G29460.1
intron # 5
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|208025874|gb|GD826680.1|GD826680
EST:     AAGTCCCATGCATGAAAGATACCACAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
genomic: AAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
EST: gi|208329190|gb|GE131230.1|GE131230
EST:     GGTCCTGAAAGTCCCATGCATGAAAGATACCGCAG                         CCAGTCACCCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGG
genomic: GGTCCTGAAAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCA-CCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGG
EST: gi|209705493|gb|BW668071.1|BW668071
EST:     AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
genomic: AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
EST: gi|254329146|gb|GR833518.1|GR833518
EST:     AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
genomic: AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
EST: gi|22927412|gb|BU544551.1|BU544551
EST:     AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAG---CCGGA
genomic: AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
EST: gi|208326938|gb|GE123686.1|GE123686
EST:     AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
genomic: AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
EST: gi|163922750|gb|EH038752.1|EH038752
EST:     AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
genomic: AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
EST: gi|207708026|gb|GD690800.1|GD690800
EST:     CATGAAAGATACCGCAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
genomic: CATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
EST: gi|6454598|gb|AW185281.1|AW185281
EST:     AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAG
genomic: AGTCCCAACTATGGCGGTCCTGAAAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAG
EST: gi|207713367|gb|GD696750.1|GD696750
EST:     GGTCCTGAAAGTCCCATGCATGAAAGATACCGCAG                         CCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA
genomic: GGTCCTGAAAGTCCCATGCATGAAAGATACCGCAGgtttgcaaac ... gataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcagccttctgtaatcttcattgttttaattgtgttcatttttgataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGAAGGGCCAACTGATTGTAGTTCTGTTTCATGGCTGGACTAAAAATTTCAT
                  ttcattgttttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgcaaacatctaactatttcttagagtttgttattcctgtttattttcttcagccttctgtaatcttcattgttttaattgtgttcatttttgataatgtagCCAGTCACCCCCTGCAGAAGAATGATTGCAGTCTTTGATGAAGAAGCCGGAAGGGCCAACTGATTGTAGTTCTGTTTCATGGCTGGACTAAAAATTTCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA