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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTTTACCTGGCAGGGTTGAAGCTAACATCACCCTTGTTCGCGGCCGTGGCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGGgtaaatactggttctaccagcagttcatattttcctgacattcttgagtgttttgtttcattttttttttgattttttttgatttttttgtttgtttgtt...

Basic information

species Physcomitrella patens
transcript PP1S46_43V6.4
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|100399060|gb|BY954179.1|BY954179
EST:     GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGG                         GCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
genomic: GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGGgtaaatactg ... aaatgttcagGCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
EST: gi|18354936|gb|BJ186995.1|BJ186995
EST:     GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGG                         GCAAGAAGAGATATCCTGTCG
genomic: GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGGgtaaatactg ... aaatgttcagGCAAGAGGAGATATCCTGTCG
EST: gi|100390535|gb|BY952943.1|BY952943
EST:     GCGCANAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGG                         GCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
genomic: GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGGgtaaatactg ... aaatgttcagGCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
EST: gi|100438691|gb|BY961753.1|BY961753
EST:     CGCANAATACGGTTCCAGTGATCACCTTCTTTGT-AGCTGCAAGCATTGG                         GCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
genomic: CGCAAAATACGATTCCAGTGATCACCTTCTT-GTTAGCTGCAAGCATTGGgtaaatactg ... aaatgttcagGCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
EST: gi|100425493|gb|BY958623.1|BY958623
EST:     GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGG                         GCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
genomic: GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGGgtaaatactg ... aaatgttcagGCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
EST: gi|100417350|gb|BY957288.1|BY957288
EST:     CGCANAATACGATTCCAGTGATCACCTTTCTTGT-AGCTGCAAGCATTGG                         GCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTT
genomic: CGCAAAATACGATTCCAGTGATCACCTT-CTTGTTAGCTGCAAGCATTGGgtaaatactg ... aaatgttcagGCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTT
EST: gi|100384686|gb|BY950676.1|BY950676
EST:     GCGCANAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGG                         GCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
genomic: GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGGgtaaatactg ... aaatgttcagGCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
EST: gi|100420641|gb|BY993442.1|BY993442
EST:     GCGCANAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGG                         GCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG
genomic: GCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGGgtaaatactg ... aaatgttcagGCAAGAGGAGATATCCTGTCGAAAGATGAGTGGTCTTGCCAAAATTCTTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTTTACCTGGCAGGGTTGAAGCTAACATCACCCTTGTTCGCGGCCGTGGCGCAAAATACGATTCCAGTGATCACCTTCTTGTTAGCTGCAAGCATTGGgtaaatactggttctaccagcagttcatattttcctgacattcttgagtgttttgtttcattttttttttgattttttttgatttttttgtttgtttgtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC