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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaactgtgaagggataaggctctttgttcggctttcaaattttaggttaagggcgtactactaacttgatcactctgatgatatctaccaaattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCTCCAAGAGAAGATGCATCTGATGTTCATCCTGATGAGTTAGTTCAGAAAG

Basic information

species Physcomitrella patens
transcript PP1S39_165V6.2
intron # 3
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|67574297|gb|BJ947121.1|BJ947121
EST:     AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAG                         GATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
genomic: AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAGgtgtgtcaat ... aattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
EST: gi|162204499|gb|FC380804.1|FC380804
EST:     TGCTTTGTCAAG                         GATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
genomic: TGCTTTGTCAAGgtgtgtcaat ... aattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
EST: gi|161970269|gb|EE296249.1|EE296249
EST:     AAAAGATTTACGCCTGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAG                         GATGCAATTGATTCAGCTACTAGAGAACATTCGAACCCAGCAGATGATGCT
genomic: AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAGgtgtgtcaat ... aattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
EST: gi|67507580|gb|BJ940461.1|BJ940461
EST:     AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAG                         GATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
genomic: AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAGgtgtgtcaat ... aattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
EST: gi|162204500|gb|FC380805.1|FC380805
EST:     AAAAGATTTACGCCAGAAGTCCTGAACCCTCCTCCGAATGCTTTGTCAAG                         GATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
genomic: AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAGgtgtgtcaat ... aattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
EST: gi|208387396|gb|DC949181.1|DC949181
EST:     AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGNATGCTTTGTCAAG                         GATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
genomic: AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAGgtgtgtcaat ... aattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
EST: gi|67578847|gb|BJ951014.1|BJ951014
EST:     AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAG                         GATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
genomic: AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAGgtgtgtcaat ... aattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
EST: gi|67575964|gb|BJ948788.1|BJ948788
EST:     AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAG                         GATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT
genomic: AAAAGATTTACGCCAGAAATCCTGAACCCTCCTCCGAATGCTTTGTCAAGgtgtgtcaat ... aattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaagggcgtactactaacttgatcactctgatgatatctaccaaattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCTCCAAGAGAAGATGCATCTGATGTTCATCCTGATGAGTTAGTTCAGAAAG
                                            aaattttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaactgtgaagggataaggctctttgttcggctttcaaattttaggttaagggcgtactactaacttgatcactctgatgatatctaccaaattttgtagGATGCAATTGATTCAGCTACTAGAGAACATTCGAATCCAGCAGATGATGCTCCAAGAGAAGATGCATCTGATGTTCATCCTGATGAGTTAGTTCAGAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG