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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCCCCCAGCTGGACACTTCTAATGCCTCCCTTTTCGGTCACTCCATGGGCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgcttacacccttctatttcatctctaatgcactatttgtcagaagtgttaatagtgagactgactccgataccaatcgcag

Basic information

species Physcomitrella patens
transcript PP1S61_17V6.4
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|162270961|gb|FC447367.1|FC447367
EST:     CCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: CCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|7067447|gb|AW497302.1|AW497302
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208364085|gb|DC943397.1|DC943397
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208380226|gb|DC919062.1|DC919062
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208381483|gb|DC919485.1|DC919485
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|162192829|gb|FC370161.1|FC370161
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|67727505|gb|BJ977764.1|BJ977764
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208348165|gb|DC920956.1|DC920956
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208396633|gb|DC924301.1|DC924301
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|100421061|gb|BY993592.1|BY993592
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCCTTGGG-
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCC-TTGGGG
EST: gi|37822595|gb|BJ580661.1|BJ580661
EST:     TTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: TTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|162192828|gb|FC370160.1|FC370160
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208345645|gb|DC905603.1|DC905603
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCANCC-AACTGCGTGTCCTTG
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTG
EST: gi|162261130|gb|FC437485.1|FC437485
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|162267025|gb|FC443074.1|FC443074
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|162267024|gb|FC443073.1|FC443073
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|67694518|gb|BJ954751.1|BJ954751
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|37846788|gb|BJ604796.1|BJ604796
EST:     GAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208344728|gb|DC905177.1|DC905177
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCANCCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|37852990|gb|BJ610998.1|BJ610998
EST:     TTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: TTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208371948|gb|DC948351.1|DC948351
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
EST: gi|208385518|gb|DC953109.1|DC953109
EST:     GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAG                         TCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA
genomic: GCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgct ... ccaatcgcagTCTGTGTCGGCATTTGCTCCTATCTGCAACCCAACTGCGTGTCCTTGGGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTCCCCCAGCTGGACACTTCTAATGCCTCCCTTTTCGGTCACTCCATGGGCGGCCATGGCGCCCTCACCCTCTTTTTGAAGAATCCTAGCAAATACAAGgtgcattgcttacacccttctatttcatctctaatgcactatttgtcagaagtgttaatagtgagactgactccgataccaatcgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA