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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaatggtttttatacctctaacttcagaaatgccttttgcattcgtcctttttctccgttgtcagcttctctgatgcctgacaacacgaatgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGGAATGTGAAGTATGAAAAGGTCGAGGGTCTGAGTTTCTGGAAGCTTGGGC

Basic information

species Physcomitrella patens
transcript PP1S83_83V6.2
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|208365908|gb|DC951087.1|DC951087
EST:     AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATG                         CCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
genomic: AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATGgtatgtttct ... atgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
EST: gi|162226685|gb|FC403770.1|FC403770
EST:     AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGTATCCCTGCTGATG                         CCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
genomic: AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATGgtatgtttct ... atgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
EST: gi|100407453|gb|BY991709.1|BY991709
EST:     AAAACCTTCGATCTGNAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATG                         CCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
genomic: AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATGgtatgtttct ... atgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
EST: gi|162226491|gb|FC402445.1|FC402445
EST:     AAAGTCTCTACCGCTGAGTGGTATCCCTGCTGATG                         CCTTGGCAGCTCAATATACAGCGCTGTCCACATTTGGGGCGTTTGTGCAGG
genomic: AAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATGgtatgtttct ... atgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
EST: gi|208398252|gb|DC916419.1|DC916419
EST:     AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATG                         CCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
genomic: AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATGgtatgtttct ... atgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
EST: gi|208365816|gb|DC951051.1|DC951051
EST:     AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATG                         CCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
genomic: AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATGgtatgtttct ... atgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
EST: gi|67692407|gb|BJ952640.1|BJ952640
EST:     AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATG                         CCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
genomic: AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATGgtatgtttct ... atgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
EST: gi|162226684|gb|FC403769.1|FC403769
EST:     AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGTATCCCTGCTGATG                         CCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG
genomic: AAAACCTTCGATCTGAAAGTCTCTACCGCTGAGTGGCATCCCTGCTGATGgtatgtttct ... atgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcctttttctccgttgtcagcttctctgatgcctgacaacacgaatgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGGAATGTGAAGTATGAAAAGGTCGAGGGTCTGAGTTTCTGGAAGCTTGGGC
                               gcctgac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaatggtttttatacctctaacttcagaaatgccttttgcattcgtcctttttctccgttgtcagcttctctgatgcctgacaacacgaatgtgtgcagCCTTTGCAGCTCAATATACAGCGCTGTCCACATCTCGGGCGCTTGTGCAGGAATGTGAAGTATGAAAAGGTCGAGGGTCTGAGTTTCTGGAAGCTTGGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG