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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTGGCATACCTGTGTATCAGCGTGCAGGCACCATCATTCCAAAGAAGCTAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttattgttggtactcggtgttattgctacttctctacacccaagctaagttccttcagttgcaagttagctgcttcatcttcttcttcttcttct...

Basic information

species Physcomitrella patens
transcript PP1S109_267V6.2
intron # 6
splice site 5'
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|67696418|gb|BJ956651.1|BJ956651
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|37835123|gb|BJ593135.1|BJ593135
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|162179377|gb|FC355377.1|FC355377
EST:     CAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: CAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|162193024|gb|FC369394.1|FC369394
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTTTACATGGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|162257303|gb|FC433386.1|FC433386
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|37822554|gb|BJ580620.1|BJ580620
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|162226741|gb|FC403800.1|FC403800
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGA
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGA
EST: gi|37822415|gb|BJ580481.1|BJ580481
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|162226740|gb|FC403799.1|FC403799
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|37839501|gb|BJ597509.1|BJ597509
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|162209158|gb|FC385377.1|FC385377
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|18340320|gb|BJ172348.1|BJ172348
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
EST: gi|162179378|gb|FC355378.1|FC355378
EST:     TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTG                         GTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC
genomic: TAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttatt ... gttgcaacagGTTGTGGCTTTGGACTCCAACTACGAGGCTGAAGGTGAGCTCTACATCGAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTGGCATACCTGTGTATCAGCGTGCAGGCACCATCATTCCAAAGAAGCTAAGGCATCGTCGCAGCTCCACTCAAATGCTGAATGACCCATACACTTTGgtatgttattgttggtactcggtgttattgctacttctctacacccaagctaagttccttcagttgcaagttagctgcttcatcttcttcttcttcttct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG