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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttccatcccttgcaatgtttctgagggcacacaccagggattcgtgggttcgaggaaatgttgttgttatcagatgaggtcaccagacaggtta...

Basic information

species Physcomitrella patens
transcript PP1S9_103V6.1
intron # 12
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|208362322|gb|DC954568.1|DC954568
EST:     ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAG                         TTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
genomic: ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttcc ... tgtttttcagTTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
EST: gi|208364988|gb|DC947130.1|DC947130
EST:     ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAG                         TTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
genomic: ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttcc ... tgtttttcagTTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
EST: gi|208371603|gb|DC952245.1|DC952245
EST:     ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAG                         TTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
genomic: ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttcc ... tgtttttcagTTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
EST: gi|208364115|gb|DC950407.1|DC950407
EST:     ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAG                         TTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
genomic: ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttcc ... tgtttttcagTTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
EST: gi|208366030|gb|DC951125.1|DC951125
EST:     ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAG                         TTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
genomic: ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttcc ... tgtttttcagTTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
EST: gi|37839956|gb|BJ597964.1|BJ597964
EST:     ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAG                         TTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
genomic: ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttcc ... tgtttttcagTTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
EST: gi|37840531|gb|BJ598539.1|BJ598539
EST:     ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAG                         TTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC
genomic: ATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttcc ... tgtttttcagTTACTTTGGAGCTCTTGTTGTCACCTGCCTGCACCTTACACTACATTCAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAAGCGGTATGACCATCATCACAGCTGATGATCTTGATGATGCAGCAAAGAAGGCAGTTAAAGCTTTGAAGCAATAGgtgtatttccatcccttgcaatgtttctgagggcacacaccagggattcgtgggttcgaggaaatgttgttgttatcagatgaggtcaccagacaggtta

- - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA