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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgagtctgaagatgaagttgattgcataagtttggcgtcatgacaatcaacatgaagttacgtgatcatgaattatgtggccttggtttcatgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTGGTGGAGATGGCTTTCGTGAATGCTACATTGGCTTTGATCCCGCAATACA

Basic information

species Physcomitrella patens
transcript PP1S97_92V6.1
intron # 1
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|18357832|gb|BJ189891.1|BJ189891
EST:     TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCA----TT-G-                         GAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
genomic: TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
EST: gi|162170536|gb|FC346863.1|FC346863
EST:     TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGT                         GAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
genomic: TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
EST: gi|208387063|gb|DC941235.1|DC941235
EST:     TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCA----TT-G-                         GAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
genomic: TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
EST: gi|67570478|gb|BJ943302.1|BJ943302
EST:     TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCA----TT-G-                         GAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
genomic: TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
EST: gi|162271313|gb|FC446691.1|FC446691
EST:     TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGT                         GAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
genomic: TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
EST: gi|37837193|gb|BJ595201.1|BJ595201
EST:     CATCTCAGTCATCTTGGCATTTTCTTGCA----TT-G-                         GAACTGTGGAGGATTGCAATCTGCTTTTTACTAACTGAAGCAAGGTAGGGT
genomic: CATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGC-TTTTACTAACTGAAGCAAGGTAGGGT
EST: gi|162268786|gb|FC444711.1|FC444711
EST:     TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGT                         GAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
genomic: TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
EST: gi|18328263|gb|BJ160267.1|BJ160267
EST:     GCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGT                         GAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
genomic: GCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
EST: gi|100433736|gb|BY960681.1|BY960681
EST:     TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCA----TT-G-                         GAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG
genomic: TCGCCTTCGCTTCATCTCAGTCATCTTGGCATTTTCTTGCATTGGTTCGTgtaagaacat ... atgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcaacatgaagttacgtgatcatgaattatgtggccttggtttcatgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTGGTGGAGATGGCTTTCGTGAATGCTACATTGGCTTTGATCCCGCAATACA
                      atgaattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgagtctgaagatgaagttgattgcataagtttggcgtcatgacaatcaacatgaagttacgtgatcatgaattatgtggccttggtttcatgtttacagGAACTGTGGAGGATTGCAATCTGCTTTTACTAACTGAAGCAAGGTAGGGTGGTGGAGATGGCTTTCGTGAATGCTACATTGGCTTTGATCCCGCAATACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG