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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttctgcttgttaattatgtactgtatacggtggaaggatgcatctacgttgtaaccagactgttcgattcgtacagttgtaattgaacgctccattgttttggttatcactagtgtttctgataacctcttgttatttttttttacagGTCAAGATCACCCTCCCCTGTACAG

Basic information

species Physcomitrella patens
transcript PP1S173_12V6.2
intron # 11
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|37848698|gb|BJ606706.1|BJ606706
EST:     GGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAA                         GTCAAGATCACCCTCCCCTGTACAG
genomic: GGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAAgtaagtttct ... ttttttacagGTCAAGATCACCCTCCCCTGTACAG
EST: gi|67698067|gb|BJ958300.1|BJ958300
EST:     CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAA                         GTCAAGATCACCCTCCCCTGTACAG
genomic: CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAAgtaagtttct ... ttttttacagGTCAAGATCACCCTCCCCTGTACAG
EST: gi|208353229|gb|DC926154.1|DC926154
EST:     CCTGCATCTAGGTCACGTTCACGTTCCCGNTCCGTTCGCTCACCCTCCAA                         GTCAAGATCACCCTCCCCTGTACAG
genomic: CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAAgtaagtttct ... ttttttacagGTCAAGATCACCCTCCCCTGTACAG
EST: gi|67691349|gb|BJ951582.1|BJ951582
EST:     CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAA                         GTCAAGATCACCCTCCCCTGTACAG
genomic: CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAAgtaagtttct ... ttttttacagGTCAAGATCACCCTCCCCTGTACAG
EST: gi|37840111|gb|BJ598119.1|BJ598119
EST:     TGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCTTCCAA                         GTCAAGATCACCCTCCCCTGTACAG
genomic: TGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAAgtaagtttct ... ttttttacagGTCAAGATCACCCTCCCCTGTACAG
EST: gi|37846921|gb|BJ604929.1|BJ604929
EST:     CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAA                         GTCAAGATCACCCTCCCCTGTACAG
genomic: CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAAgtaagtttct ... ttttttacagGTCAAGATCACCCTCCCCTGTACAG
EST: gi|37845069|gb|BJ603077.1|BJ603077
EST:     CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAA                         GTCAAGATCACCCTCCCCTGTACAG
genomic: CCTGCATCTAGGTCACGTTCACGTTCCCGCTCCGTTCGCTCACCCTCCAAgtaagtttct ... ttttttacagGTCAAGATCACCCTCCCCTGTACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgttttggttatcactagtgtttctgataacctcttgttatttttttttacagGTCAAGATCACCCTCCCCTGTACAG
                          tgataac  putative branch site (score: 2)
                                cctcttgttatttttt  CT-rich tract
                                  tcttgttatttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtttctgcttgttaattatgtactgtatacggtggaaggatgcatctacgttgtaaccagactgttcgattcgtacagttgtaattgaacgctccattgttttggttatcactagtgtttctgataacctcttgttatttttttttacagGTCAAGATCACCCTCCCCTGTACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA