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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagactttcgaccttactgatgctgttgtgtcatttagagaccacggtgtgtttagtaaaagcattacatggatcaagttgtgtgtacatgggcattggccgtgaaatattattttaacgaagattgatcggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCTGGGATATGAG

Basic information

species Physcomitrella patens
transcript PP1S120_79V6.2
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|18342689|gb|BJ174724.1|BJ174724
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|67692817|gb|BJ953050.1|BJ953050
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|37821833|gb|BJ579899.1|BJ579899
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|67694462|gb|BJ954695.1|BJ954695
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|67574192|gb|BJ947016.1|BJ947016
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|162210552|gb|FC386848.1|FC386848
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|67569549|gb|BJ942373.1|BJ942373
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|162221907|gb|FC398175.1|FC398175
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|162227422|gb|FC403156.1|FC403156
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|162266890|gb|FC443004.1|FC443004
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
EST: gi|67691738|gb|BJ951971.1|BJ951971
EST:     AGGACCCCAAGNCAAGCTTGGAGTTCTACTCAAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTTGACGAGNCCAAATTCAGCTTGTACTTCC
genomic: AGGACCCCAAGGCAAGCTTGGAGTTCTACTC-AAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGA-TTTTGACGAGGCCAAATTCAGCTTGTACTTCC
EST: gi|67697592|gb|BJ957825.1|BJ957825
EST:     AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGAC                         GCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT
genomic: AAGGACCCCAAGGCAAGCTTGGAGTTCTACTCAAAGGTTTTGGGCATGACgtaagacttt ... ggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacatgggcattggccgtgaaatattattttaacgaagattgatcggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCTGGGATATGAG
                   aaatattattttaacg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagactttcgaccttactgatgctgttgtgtcatttagagaccacggtgtgtttagtaaaagcattacatggatcaagttgtgtgtacatgggcattggccgtgaaatattattttaacgaagattgatcggtgatttagGCTTATCAAAAGGCTTGATTTTGACGAGGCCAAATTCAGCTTGTACTTCCTGGGATATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT