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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCTGATGTGACGAGACAGTTGCTTCTGTTTGCGAATCCTGAGGAATATCAGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAGgtatgatgtgccacgacttctcattaactgtgtatacatattcggtaaccccaattgccgttcttaacatcgctgatgctactggtggctgcag

Basic information

species Physcomitrella patens
transcript PP1S422_7V6.1
intron # 3
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|162228933|gb|FC404726.1|FC404726
EST:     AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAG                         ATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
genomic: AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAGgtatgatgtg ... gtggctgcagATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
EST: gi|162218094|gb|FC394957.1|FC394957
EST:     AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAG                         ATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
genomic: AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAGgtatgatgtg ... gtggctgcagATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
EST: gi|162170029|gb|FC345082.1|FC345082
EST:     AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAG                         ATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
genomic: AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAGgtatgatgtg ... gtggctgcagATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
EST: gi|162167529|gb|FC344220.1|FC344220
EST:     AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGGCTTTCAAGAAGAAG                         ATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
genomic: AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAGgtatgatgtg ... gtggctgcagATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
EST: gi|162248488|gb|FC420935.1|FC420935
EST:     AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAG                         ATTACCTTTGTTCTCGTGGACCTCGCTGA
genomic: AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAGgtatgatgtg ... gtggctgcagATTACCTTTGTTCTCGTGGACCTCGCTGA
EST: gi|162198843|gb|FC372870.1|FC372870
EST:     AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAG                         ATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT
genomic: AGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAGgtatgatgtg ... gtggctgcagATTACCTTTGTTCTCGTGGACCTCGCTGATGAGGAGGTGGCCACTCCCGTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTCTGATGTGACGAGACAGTTGCTTCTGTTTGCGAATCCTGAGGAATATCAGAAGATCCGTGCTGATTATGAAGAGGCAGCCAAGTCTTTCAAGAAGAAGgtatgatgtgccacgacttctcattaactgtgtatacatattcggtaaccccaattgccgttcttaacatcgctgatgctactggtggctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG