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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACAGAGTCTTCGGTTTACATTCCCCGCTGATGGAATGCTGAAGCTTCCTTTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttgatctcttgagaaacacgtgtgttagaggcgtacgagcagttttttcggctttaactgtgctctagcaaaacggtagctttcccgaaggtat...

Basic information

species Physcomitrella patens
transcript PP1S475_17V6.2
intron # 1
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|100413362|gb|BY956634.1|BY956634
EST:     TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAG                         GTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
genomic: TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttga ... tgtctatcagGTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
EST: gi|208395911|gb|DC920333.1|DC920333
EST:     AAGCAGCTAGGGATGCAGGTAGTGGCGAG                         GTCGTTTGACTCTCCGCTGATCGAA-GGNTTGAAAGTACACTGCAGAACTT
genomic: AAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttga ... tgtctatcagGTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
EST: gi|100406619|gb|BY955689.1|BY955689
EST:     TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAG                         GTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
genomic: TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttga ... tgtctatcagGTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
EST: gi|208345867|gb|DC921066.1|DC921066
EST:     CCAGAGGAGNAAGCAGCTA-GGATGCAGGTAGGGGCGAG                         GTCGTTTGACTCTCCGCTGATCGAA-GGNTTGAAAGTACACTGCAGAACTT
genomic: CCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttga ... tgtctatcagGTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
EST: gi|100386063|gb|BY970002.1|BY970002
EST:     TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAG                         GTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
genomic: TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttga ... tgtctatcagGTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
EST: gi|208383160|gb|DC907190.1|DC907190
EST:     TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAG                         GTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
genomic: TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttga ... tgtctatcagGTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
EST: gi|162263798|gb|FC439663.1|FC439663
EST:     TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAG                         GTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
genomic: TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttga ... tgtctatcagGTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
EST: gi|100364851|gb|BY947939.1|BY947939
EST:     TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAG                         GTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT
genomic: TTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttga ... tgtctatcagGTCGTTTGACTCTCCGCTGATCGAAGGGTTTGAAAGTACACTGCAGAACTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACAGAGTCTTCGGTTTACATTCCCCGCTGATGGAATGCTGAAGCTTCCTTTGAGAAATCGCCAGAGGAGAAAGCAGCTAGGGATGCAGGTAGTGGCGAGgtgagtttgatctcttgagaaacacgtgtgttagaggcgtacgagcagttttttcggctttaactgtgctctagcaaaacggtagctttcccgaaggtat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT