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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgctgtgcgtgttctccttttttcgcgcagcctagttggttaacttactgcgtattaattctacgcttctccatgttgtgtataaccttgctgtggtagGTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGTGCGGTGCAGTCAAAGGCAGCTGAACCTTACTTGCTGCTATGTGGTGTAAC

Basic information

species Physcomitrella patens
transcript PP1S95_116V6.2
intron # 2
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|100366857|gb|BY948245.1|BY948245
EST:     AAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCTTTGNCA-TGCAG                         GTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGT
genomic: AAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCTTTG-CAATGCAGgtgcagctcc ... gctgtggtagGTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGT
EST: gi|100380418|gb|BY986688.1|BY986688
EST:     AAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCCTTTGCA-TGCAG                         GTGTGAATTGGGTCATAAGGGTGGA
genomic: AAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACC-TTTGCAATGCAGgtgcagctcc ... gctgtggtagGTGTGAATTGGGTCATAAGGGTGGA
EST: gi|100379014|gb|BY986531.1|BY986531
EST:     GAAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCTTTGCAATGCAN                         GTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTAT
genomic: GAAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCTTTGCAATGCAGgtgcagctcc ... gctgtggtagGTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTAT
EST: gi|162264170|gb|FC440232.1|FC440232
EST:     GAAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCTTTGCAATGCAG                         GTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGTG
genomic: GAAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCTTTGCAATGCAGgtgcagctcc ... gctgtggtagGTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGTG
EST: gi|162205194|gb|FC381292.1|FC381292
EST:     GAAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCTTTGCAATGCAG                         GTGTGAATTGNGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGTG
genomic: GAAACCGTGTGTTGTTATTTACGATGGTGTTTGCCACCTTTGCAATGCAGgtgcagctcc ... gctgtggtagGTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactgcgtattaattctacgcttctccatgttgtgtataaccttgctgtggtagGTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGTGCGGTGCAGTCAAAGGCAGCTGAACCTTACTTGCTGCTATGTGGTGTAAC
                                         ccttgct  CT-rich tract
 tattaattcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgctgtgcgtgttctccttttttcgcgcagcctagttggttaacttactgcgtattaattctacgcttctccatgttgtgtataaccttgctgtggtagGTGTGAATTGGGTCATAAGGGTGGACAAGAAGAAAGCTATCTCGTTTTGTGCGGTGCAGTCAAAGGCAGCTGAACCTTACTTGCTGCTATGTGGTGTAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT