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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatactttctggcaatctatgcattaatgttgctcatacttaagattgttttgccttctttctgtgatatgtaatattgacttcccatagtttcaaatgtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG

Basic information

species Glycine max
transcript GLYMA06G42840.1
intron # 7
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|193328173|gb|FK293410.1|FK293410
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTA
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTA
EST: gi|17023095|gb|BM094129.1|BM094129
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
EST: gi|11689096|gb|BF596772.1|BF596772
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
EST: gi|193436613|gb|FK399498.1|FK399498
EST:     TTGATATCTGGTCAGCNGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
EST: gi|8401865|gb|BE057499.1|BE057499
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
EST: gi|193403386|gb|FK367708.1|FK367708
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGG
EST: gi|6502169|gb|AW203542.1|AW203542
EST:     TTGATATCTGGTCAGCTGGTTGTGT-CTTGCTGA-CTTCTTCTNG-ACAG                         CCATTGTTTCCTGGAGAAAATCAAGTGGACCAACTT
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTT
EST: gi|9819612|gb|BE555125.1|BE555125
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
EST: gi|208234782|gb|GE032397.1|GE032397
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGA
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGA
EST: gi|193432041|gb|FK393839.1|FK393839
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
EST: gi|208124192|gb|GD922000.1|GD922000
EST:     TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAG                         CCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
genomic: TTGATATCTGGTCAGCTGGTTGTGTTCTTGCTGAACTTCTTCTAGGACAGgttatacttt ... gtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttctttctgtgatatgtaatattgacttcccatagtttcaaatgtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG
                     tattgac  putative branch site (score: 2)
                                              tttgttt  putative PPT
           tgatatgtaatatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttatactttctggcaatctatgcattaatgttgctcatacttaagattgttttgccttctttctgtgatatgtaatattgacttcccatagtttcaaatgtttgtttagCCATTGTTTCCTGGAGAAAATCAGGTGGACCAACTTGTGGAAATTATTAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA