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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagcagtacttgaagaatctctatttacagcttggctgttttacagttatctgtggcacgaatgccttcacttgattctcaataatcttgtcgcctgcagGTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTATTCAGGAGATACGGAAGGGAAGTTCAACTGTCAGTGCCCTGTCTCTGCC

Basic information

species Physcomitrella patens
transcript PP1S98_43V6.2
intron # 3
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|18335412|gb|BJ167431.1|BJ167431
EST:     TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAG                         GTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
genomic: TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAGgtaacattag ... tcgcctgcagGTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
EST: gi|162188836|gb|FC364850.1|FC364850
EST:     TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAG                         GTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
genomic: TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAGgtaacattag ... tcgcctgcagGTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
EST: gi|162192102|gb|FC368251.1|FC368251
EST:     TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAG                         GTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
genomic: TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAGgtaacattag ... tcgcctgcagGTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
EST: gi|162190016|gb|FC366590.1|FC366590
EST:     TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAG                         GTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
genomic: TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAGgtaacattag ... tcgcctgcagGTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
EST: gi|162192101|gb|FC368250.1|FC368250
EST:     TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAG                         GTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA
genomic: TAGAGCCGGAGACTCTCAGAGTGAGCCACGACAGCCCTCATATCAAACAGgtaacattag ... tcgcctgcagGTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttatctgtggcacgaatgccttcacttgattctcaataatcttgtcgcctgcagGTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTATTCAGGAGATACGGAAGGGAAGTTCAACTGTCAGTGCCCTGTCTCTGCC
                        acttgat  putative branch site (score: 5)
                                        tcttgtc  putative PPT
                                   aataatctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagcagtacttgaagaatctctatttacagcttggctgttttacagttatctgtggcacgaatgccttcacttgattctcaataatcttgtcgcctgcagGTCATACCGCTGAGGGAATATTAAAAAGCGCCGTGGCTGCTTTACGCACTATTCAGGAGATACGGAAGGGAAGTTCAACTGTCAGTGCCCTGTCTCTGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT