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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attatatgtacaataaatagggtcgtttttggtttgacatactcgtttcataatttttcttgtgaagaactaggttctcatccaattgaaaatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG

Basic information

species Glycine max
transcript GLYMA01G35190.2
intron # 13
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|19938441|gb|BQ081721.1|BQ081721
EST:     GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
EST: gi|22927291|gb|BU544430.1|BU544430
EST:     GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
EST: gi|23730262|gb|BU763229.1|BU763229
EST:     GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
EST: gi|26059828|gb|CA802742.1|CA802742
EST:     GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
EST: gi|19348400|gb|BM892932.1|BM892932
EST:     GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
EST: gi|9203919|gb|BE330143.1|BE330143
EST:     GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
EST: gi|15336881|gb|BI497537.1|BI497537
EST:     GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
EST: gi|6454955|gb|AW185565.1|AW185565
EST:     GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
EST: gi|298178671|gb|HO024406.1|HO024406
EST:     GCTCTCCGATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAG                         GTGTGCAACGGAAGCTGGATATGGTAAATCAG
genomic: GCTCTCCAATAATTTTTCTTCCATGAAATTACATCCTCCTTTAGCTTCAGgtgacccaat ... aatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcataatttttcttgtgaagaactaggttctcatccaattgaaaatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG
                                      aattgaaaatgtta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attatatgtacaataaatagggtcgtttttggtttgacatactcgtttcataatttttcttgtgaagaactaggttctcatccaattgaaaatgttacagGTGTGCAACGGAAGCTGGATATGGTAAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA