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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgatacagtactccaatctaattactatgaagaacgcatagatgatcatacaacggtactgctgtccatttcactaagctaaaagcatccacattggagatagaaatatcatgctaacatgtatcctatctgactgtgccgtcttgaacagGGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGCGCCAATATCGTGCTTCCAAGAAGAATGAACCTTGTCCAGTAGAGCAAAG

Basic information

species Physcomitrella patens
transcript PP1S61_277V6.2
intron # 10
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|67698086|gb|BJ958319.1|BJ958319
EST:     GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAG                         GGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGC
genomic: GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAGgttagtgata ... tcttgaacagGGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGC
EST: gi|208365600|gb|DC944098.1|DC944098
EST:     GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAG                         GGAGTGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGC
genomic: GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAGgttagtgata ... tcttgaacagGGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGC
EST: gi|37834159|gb|BJ592171.1|BJ592171
EST:     GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAG                         GGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGC
genomic: GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAGgttagtgata ... tcttgaacagGGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGC
EST: gi|162176344|gb|FC353529.1|FC353529
EST:     GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAG                         GGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGC
genomic: GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAGgttagtgata ... tcttgaacagGGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGC
EST: gi|67574672|gb|BJ947496.1|BJ947496
EST:     GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAG                         GGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTTATTGAAACG
genomic: GCAACGGCGTCTGGATCATGAAGGAGCGTGAAATTTTGACGGTTGATGAGgttagtgata ... tcttgaacagGGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTT-ATTGAAACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagatagaaatatcatgctaacatgtatcctatctgactgtgccgtcttgaacagGGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGCGCCAATATCGTGCTTCCAAGAAGAATGAACCTTGTCCAGTAGAGCAAAG
                                          ccgtctt  CT-rich tract
       aaatatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtgatacagtactccaatctaattactatgaagaacgcatagatgatcatacaacggtactgctgtccatttcactaagctaaaagcatccacattggagatagaaatatcatgctaacatgtatcctatctgactgtgccgtcttgaacagGGAATGGTATGCCACATGGCTCAGCAGGCTTCTACCAACTTATTGAAACGCGCCAATATCGTGCTTCCAAGAAGAATGAACCTTGTCCAGTAGAGCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG