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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagaaattcagactctccagagtgcaattgctccgtatagtgcaaatgcatgtagcctttacagaaacctaactcctgcattgcgatattttgtgttatttgtgtggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACAATTCAGAGGCATTACGAGGTGTAAACTTCGCAAGAAGCGGGGCGGGTGT

Basic information

species Physcomitrella patens
transcript PP1S485_2V6.1
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|18354959|gb|BJ187018.1|BJ187018
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100400045|gb|BY990751.1|BY990751
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|208350029|gb|DC910264.1|DC910264
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|208383770|gb|DC911480.1|DC911480
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|162270839|gb|FC446868.1|FC446868
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|18365780|gb|BJ197858.1|BJ197858
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100421006|gb|BY993569.1|BY993569
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|18356091|gb|BJ188150.1|BJ188150
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|162208832|gb|FC384968.1|FC384968
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|208388919|gb|DC932947.1|DC932947
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100401340|gb|BY990953.1|BY990953
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|18368542|gb|BJ200627.1|BJ200627
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|18343504|gb|BJ175542.1|BJ175542
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100410297|gb|BY992036.1|BY992036
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAANACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|18368327|gb|BJ200412.1|BJ200412
EST:     TACCCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: TACCCC-GCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|208377449|gb|DC906676.1|DC906676
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100419722|gb|BY957690.1|BY957690
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|18361207|gb|BJ193272.1|BJ193272
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAA
EST: gi|100431820|gb|BY978522.1|BY978522
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100415879|gb|BY956969.1|BY956969
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|208383925|gb|DC907316.1|DC907316
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100361681|gb|BY947769.1|BY947769
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAANACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100357038|gb|BY983663.1|BY983663
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|18351413|gb|BJ183465.1|BJ183465
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|100379676|gb|BY949888.1|BY949888
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAANACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
EST: gi|208348000|gb|DC905323.1|DC905323
EST:     ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTG                         CGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA
genomic: ATACCCCGCGGGCCGATTCAATGAGGGTCGAAACCTAGCGGACTGCATTGgtaaagaaat ... tggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacagaaacctaactcctgcattgcgatattttgtgttatttgtgtggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACAATTCAGAGGCATTACGAGGTGTAAACTTCGCAAGAAGCGGGGCGGGTGT
       acctaac  putative branch site (score: 2)
                          atattttgtgttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagaaattcagactctccagagtgcaattgctccgtatagtgcaaatgcatgtagcctttacagaaacctaactcctgcattgcgatattttgtgttatttgtgtggttggcagCGGAGCTCTTCGACCTGCCATACCCTACCCCCTACTTGCGTCTAGAAAACAATTCAGAGGCATTACGAGGTGTAAACTTCGCAAGAAGCGGGGCGGGTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC