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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttccacttcttatctcgtttacttctcttttctatcatttttgtcagtaatattaatgaatgaaagccagaggagaataaatgttttatagtttcagatggacagtggcaaaacaatttcgtattcaggctactccgtaagacaatgtcggcgttgacaacatggattgctgttgaggcattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCAATGTTCGAGAGCGA

Basic information

species Physcomitrella patens
transcript PP1S45_277V6.2
intron # 17
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|162163012|gb|FC338402.1|FC338402
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
EST: gi|37846978|gb|BJ604986.1|BJ604986
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
EST: gi|18335079|gb|BJ167097.1|BJ167097
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
EST: gi|37851600|gb|BJ609608.1|BJ609608
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
EST: gi|37850950|gb|BJ608958.1|BJ608958
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
EST: gi|37848518|gb|BJ606526.1|BJ606526
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
EST: gi|37853036|gb|BJ611044.1|BJ611044
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
EST: gi|37850034|gb|BJ608042.1|BJ608042
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
EST: gi|162241089|gb|FC414133.1|FC414133
EST:     TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACAC                         CTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA
genomic: TGGGGATCGTTTTCTGCCTTATGTGCCTATTTTGTTCCTTGGGTGTACACgtacgttcca ... cattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccgtaagacaatgtcggcgttgacaacatggattgctgttgaggcattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCAATGTTCGAGAGCGA
                  cgttgac  putative branch site (score: 4)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacgttccacttcttatctcgtttacttctcttttctatcatttttgtcagtaatattaatgaatgaaagccagaggagaataaatgttttatagtttcagatggacagtggcaaaacaatttcgtattcaggctactccgtaagacaatgtcggcgttgacaacatggattgctgttgaggcattgtgcagCTTTTCGGTGGTCTTGTCTATGCTGGAAATCCCATCCTGGAGACCACCTCAATGTTCGAGAGCGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA