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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agccggtcgagaaattctttgtccaaggtccatcaatttcgcagaattcacccttcaatccgggcctgaaatggtttctgttatcttattttgacaggagATTGCCAAGAGGTTACCTCGGGGACAATCGAGCTTGTCGAGGGACTGAACATTCTCTAGAGCATTATTCTATTACCCCAGATGCCAGAGTATCATGATAG

Basic information

species Physcomitrella patens
transcript PP1S97_119V6.1
intron # 7
splice site 3'
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|37827510|gb|BJ585522.1|BJ585522
EST:     TTATTGAAACGTCAGCGAAGACTTCTGAGAACGTGAACCAATTATTTGAG                         ATTGCCAAGAGGTTACCTCGGGGACAATCGAGCTTGTCGAGGGACTGAACA
genomic: TTATTGAAACGTCAGCGAAGACTTCTGAGAACGTGAACCAATTATTTGAGgtagatatct ... ttgacaggagATTGCCAAGAGGTTACCTCGGGGACAATCGAGCTTGTCGAGGGACTGAACA
EST: gi|208370967|gb|DC944342.1|DC944342
EST:     TTATTGAAACGTCAGCGAAGACTTCTGAGAACGTGAACCAATTATTTGAG                         G
genomic: TTATTGAAACGTCAGCGAAGACTTCTGAGAACGTGAACCAATTATTTGAGgtagatatct ... ttgacaggag-
EST: gi|208370967|gb|DC944342.1|DC944342
EST:     TTATTGAAACGTCAGCGAAGACTTCTGAGAACGTGAACCAATTATTTGAG                         G
genomic: TTATTGAAACGTCAGCGAAGACTTCTGAGAACGTGAACCAATTATTTGAGgtagatatct ... ttgacaggag-
EST: gi|208351094|gb|DC921340.1|DC921340
EST:     TTATTGAAACGTCAGCGAAGACTTCTGAGAACGTGAACCAATTATTTGAG                         ATTGCCAAGAGGTTACCTCGGGGACAATCGAGCTTGTCGAGGGACTGAACA
genomic: TTATTGAAACGTCAGCGAAGACTTCTGAGAACGTGAACCAATTATTTGAGgtagatatct ... ttgacaggagATTGCCAAGAGGTTACCTCGGGGACAATCGAGCTTGTCGAGGGACTGAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcacccttcaatccgggcctgaaatggtttctgttatcttattttgacaggagATTGCCAAGAGGTTACCTCGGGGACAATCGAGCTTGTCGAGGGACTGAACATTCTCTAGAGCATTATTCTATTACCCCAGATGCCAGAGTATCATGATAG
                                           ttttgac  putative branch site (score: 3)
                                      tcttatttt  CT-rich tract
                                 tgttatcttatttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agccggtcgagaaattctttgtccaaggtccatcaatttcgcagaattcacccttcaatccgggcctgaaatggtttctgttatcttattttgacaggagATTGCCAAGAGGTTACCTCGGGGACAATCGAGCTTGTCGAGGGACTGAACATTCTCTAGAGCATTATTCTATTACCCCAGATGCCAGAGTATCATGATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGATG