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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggttcagtctttgcggagttttcagtatagaattgcgttcagaaccatatgatactgggttgttgagctgcatcgacttccttaaccacaagggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGGGGGAGATTGATACTCG

Basic information

species Physcomitrella patens
transcript PP1S163_87V6.1
intron # 3
splice site 3'
intron type U12 (go to U12 genes for details)

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|100388504|gb|BY952106.1|BY952106
EST:     TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCAT                         ACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
genomic: TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCATgtatccttgt ... agggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
EST: gi|67578004|gb|BJ950171.1|BJ950171
EST:     TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCAT                         ACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
genomic: TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCATgtatccttgt ... agggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
EST: gi|208360087|gb|DC934948.1|DC934948
EST:     TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCAT                         ACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
genomic: TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCATgtatccttgt ... agggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
EST: gi|208362844|gb|DC950794.1|DC950794
EST:     TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCAT                         ACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
genomic: TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCATgtatccttgt ... agggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
EST: gi|208389899|gb|DC937730.1|DC937730
EST:     TGCTCTGTTTGACAGGGTTGATGCTGTAAACGCCGATAAAATTGCATCAT                         ACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAA
genomic: TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCATgtatccttgt ... agggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAA
EST: gi|208375311|gb|DC940449.1|DC940449
EST:     TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCAT                         ACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG
genomic: TGCTCTGTTTGACAGGGTTGATGCTGTAGACGCCGATAAAATTGCATCATgtatccttgt ... agggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catatgatactgggttgttgagctgcatcgacttccttaaccacaagggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGGGGGAGATTGATACTCG
                                ttccttaac  putative branch site
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttcagtctttgcggagttttcagtatagaattgcgttcagaaccatatgatactgggttgttgagctgcatcgacttccttaaccacaagggacgtagACATCTCAGGATTACAGAATGAGGATGGATCCTTCTCTGGTGACGAATGGGGGGAGATTGATACTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agctgca