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

gtaggccacaaatttatttaaattttaacaccttgacttgtttattcaagcatttcccattggttaaggttgttacaactgctatggattatttatttgagagttctctctggactgtgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGATTAAGGAGGACCAAGCCAACACCCTTGTTACAGAAGAACAGCGTAAAG

Basic information

species Physcomitrella patens
transcript PP1S93_67V6.1
intron # 4
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|208348153|gb|DC920944.1|DC920944
EST:     TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|37836462|gb|BJ594470.1|BJ594470
EST:     TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|208384568|gb|DC907069.1|DC907069
EST:     TCGAATCTCCATCCCGNCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAAGCGTCTGTTCAGGCTCANCCTTATGTCNCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|208398893|gb|DC920841.1|DC920841
EST:     TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|208375976|gb|DC906967.1|DC906967
EST:     TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAAANGCGTCTGTTCAGGCTCANCCTTATGTCNCAAATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|208387152|gb|DC945451.1|DC945451
EST:     TCGAATCTCCATCCCGCTCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|208366273|gb|DC947531.1|DC947531
EST:     TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|18336673|gb|BJ168696.1|BJ168696
EST:     TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|208373033|gb|DC948798.1|DC948798
EST:     TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA
EST: gi|22491833|gb|BU051756.1|BU051756
EST:     TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTG                         AAGAAGCGTCTGTTCAGGCTCAGCCTTATGTCCCAGATGACTATGTCAGGA
genomic: TCGAATCTCCATCCCGCCCACCCTCTCCGCAACCGAAGCGCCCAAGTCTGgtaggccaca ... tgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacaactgctatggattatttatttgagagttctctctggactgtgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGATTAAGGAGGACCAAGCCAACACCCTTGTTACAGAAGAACAGCGTAAAG
                                             tgtttttc  CT-rich tract
          tatggattatttattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggccacaaatttatttaaattttaacaccttgacttgtttattcaagcatttcccattggttaaggttgttacaactgctatggattatttatttgagagttctctctggactgtgtttttcagAAGAGGCGTCTGTTCAGGCTCAGCCTTATGTCGCAGATGACTATGTCAGGATTAAGGAGGACCAAGCCAACACCCTTGTTACAGAAGAACAGCGTAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC