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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttagcctctagttagttacgagcgtgaatttctgtgttatcgctttgcgttcaaatctaattttctagtactgactgcagcatttttattttgtgcacagAATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGACCTGATTTGGGAGATAATTTATTTTCT

Basic information

species Glycine max
transcript GLYMA01G43470.2
intron # 18
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|254347181|gb|GR856851.1|GR856851
EST:     TCACTCCAACATACA-GA-GA-GAGGCCACAGTTGCTTAAATACTATCAG                         GATGCCATTGACA
genomic: TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttg ... ttgtgcacagAATGCCATTGACA
EST: gi|151396024|gb|EV265901.1|EV265901
EST:     TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAG                         AATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGAC
genomic: TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttg ... ttgtgcacagAATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGAC
EST: gi|19270925|gb|BM887181.1|BM887181
EST:     TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAG                         AATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGAC
genomic: TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttg ... ttgtgcacagAATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGAC
EST: gi|23733236|gb|BU764804.1|BU764804
EST:     TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAG                         AATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGAC
genomic: TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttg ... ttgtgcacagAATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGAC
EST: gi|51342594|gb|CO983564.1|CO983564
EST:     TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAG                         AATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCTTGAGAN
genomic: TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttg ... ttgtgcacagAATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGAC
EST: gi|11275038|gb|BF325362.1|BF325362
EST:     TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAG                         AATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCC
genomic: TCACTCCAACATACAAGAAGAAGAGGCCACAGTTGCTTAAATACTATCAGgtacaagttg ... ttgtgcacagAATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcgttcaaatctaattttctagtactgactgcagcatttttattttgtgcacagAATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGACCTGATTTGGGAGATAATTTATTTTCT
                       tactgac  putative branch site (score: 1)
                                     tttttatttt  putative PPT
       aaatctaattttcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttagcctctagttagttacgagcgtgaatttctgtgttatcgctttgcgttcaaatctaattttctagtactgactgcagcatttttattttgtgcacagAATGCCATTGACAACATGTATAAGAGTGGAAGTAAACCCAGTGCCTGAGACCTGATTTGGGAGATAATTTATTTTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT