Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcgtgaaaacttacgacttatgtgtcgtttgttctatggaattatttgaaattgtagttctaaatgccttttatgtggtattatttagcgattgtgttttgatgctcatgcgctttcctttttaattatttttattttcaatcgttctttcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGATACTTTTGCCTCGGCTGCTGAGCGTGATATTTATACG

Basic information

species Physcomitrella patens
transcript PP1S197_22V6.2
intron # 6
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|208364450|gb|DC954525.1|DC954525
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|18341261|gb|BJ173295.1|BJ173295
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|37852978|gb|BJ610986.1|BJ610986
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208377412|gb|DC927072.1|DC927072
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|37837799|gb|BJ595807.1|BJ595807
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208368331|gb|DC955528.1|DC955528
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|162168952|gb|FC345634.1|FC345634
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208379303|gb|DC927286.1|DC927286
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208368886|gb|DC947444.1|DC947444
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208371088|gb|DC955936.1|DC955936
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|37833061|gb|BJ591073.1|BJ591073
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|67725639|gb|BJ975898.1|BJ975898
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208365808|gb|DC955439.1|DC955439
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|37840277|gb|BJ598285.1|BJ598285
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|162266012|gb|FC442697.1|FC442697
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208373759|gb|DC952722.1|DC952722
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208367768|gb|DC944014.1|DC944014
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208374709|gb|DC948667.1|DC948667
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|162209736|gb|FC385670.1|FC385670
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|208371358|gb|DC952119.1|DC952119
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
EST: gi|162186318|gb|FC361626.1|FC361626
EST:     TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGG                         GAGTCATCAACTTCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT
genomic: TCCTGGACAACCAACTGAAGTCTGCTAGTCCTCTTGTCCTACCACCAAGGgtgagcgtga ... tcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcatgcgctttcctttttaattatttttattttcaatcgttctttcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGATACTTTTGCCTCGGCTGCTGAGCGTGATATTTATACG
               ttttaat  putative branch site (score: 3)
                                     tcgttctttc  putative PPT
              tttttaattattttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcgtgaaaacttacgacttatgtgtcgtttgttctatggaattatttgaaattgtagttctaaatgccttttatgtggtattatttagcgattgtgttttgatgctcatgcgctttcctttttaattatttttattttcaatcgttctttcgagtgtagGAGTCATCAACTCCTTTGACAGAGAACGAGGCGGTCGATCTCATCAAGGATACTTTTGCCTCGGCTGCTGAGCGTGATATTTATACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT