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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctttcatactacaggatgccttaatgttctgttgcagtgacctcttcgaacatctgaatgacggttcaccctatattttatcccggcatgtttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGTCCTATAAAACGT

Basic information

species Physcomitrella patens
transcript PP1S332_45V6.1
intron # 5
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|18355039|gb|BJ187098.1|BJ187098
EST:     ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
EST: gi|18342127|gb|BJ174162.1|BJ174162
EST:     ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
EST: gi|67718772|gb|BJ969031.1|BJ969031
EST:     ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
EST: gi|100452661|gb|CJ975381.1|CJ975381
EST:     ATCCAGATATAGAAGGAGGTCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
EST: gi|67712849|gb|BJ966298.1|BJ966298
EST:     ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAA
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAA
EST: gi|162156991|gb|FC333353.1|FC333353
EST:     ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
EST: gi|100391079|gb|BY953089.1|BY953089
EST:     ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
EST: gi|100388050|gb|BY988523.1|BY988523
EST:     ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
EST: gi|18373032|gb|BJ204634.1|BJ204634
EST:     ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATT                         AGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT
genomic: ATCCAGATATAGAAGGAGATCCTTACAAGACCCTTTTTGTAGCTCGCATTgtatgtcttt ... tttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgaacatctgaatgacggttcaccctatattttatcccggcatgtttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGTCCTATAAAACGT
                                           tgtttctt  CT-rich tract
                          tatattttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctttcatactacaggatgccttaatgttctgttgcagtgacctcttcgaacatctgaatgacggttcaccctatattttatcccggcatgtttcttgcagAGCTATGAAACGACCGAACACAAAATTCGAAGAGAATTTGAAAGCTATGGTCCTATAAAACGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - -tgttgca