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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacatccgacaacgacttaactctatgaatgtatacagtgttatcagcctgtttccaatacttctcatttactactctcgttttaatgttcactactatcactaatgctgtggctgtgagcagGTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTTATTACAGCAGTAAATAGAAGCTTCAACCAGATTACG

Basic information

species Physcomitrella patens
transcript PP1S90_220V6.2
intron # 11
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|162173818|gb|FC349410.1|FC349410
EST:     TAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGA                         GTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTT
genomic: TAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGAgtacatccga ... ctgtgagcagGTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTT
EST: gi|162169383|gb|FC345739.1|FC345739
EST:     TAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGA                         GTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTAT
genomic: TAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGAgtacatccga ... ctgtgagcagGTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTAT
EST: gi|208372841|gb|DC956242.1|DC956242
EST:     GCGAAAGGATCTGGCATGATTCATCCAAACCATGGGCGACCATGCTCGGA                         GTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTT
genomic: GCGAAAGGATCTGGCATGATTCATCCAAA-CAT-GGCGACCATGCTCGGAgtacatccga ... ctgtgagcagGTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTT
EST: gi|162152901|gb|FC329203.1|FC329203
EST:     TAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGA                         GTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTT
genomic: TAGCGAAAGGATCTGGCATGATTCATCCAAACATGGCGACCATGCTCGGAgtacatccga ... ctgtgagcagGTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactactctcgttttaatgttcactactatcactaatgctgtggctgtgagcagGTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTTATTACAGCAGTAAATAGAAGCTTCAACCAGATTACG
                               cactaat  putative branch site (score: 2)
            ttttaatgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatccgacaacgacttaactctatgaatgtatacagtgttatcagcctgtttccaatacttctcatttactactctcgttttaatgttcactactatcactaatgctgtggctgtgagcagGTTGTGACTTGTGATGTAGATGTTACGGCGGAGGTATGGAGGCCAATGGTTATTACAGCAGTAAATAGAAGCTTCAACCAGATTACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC