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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctgctgtaaatgaacgtccaaaaaatcatcatatcactcttaaaagcattttaaggtgcacaattttaatcttttaccatttgtatttgtgtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCCTCACGTCTCCAGATTACCTTGATAGAGACTGTTGCG

Basic information

species Physcomitrella patens
transcript PP1S55_207V6.2
intron # 19
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|37828397|gb|BJ586409.1|BJ586409
EST:     ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAG                         GATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
genomic: ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
EST: gi|37826354|gb|BJ584366.1|BJ584366
EST:     ACGCTGCTGCTCGCTACTATNTAAACAATTTTCGAGATGGGAACAAGCAG                         GATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
genomic: ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
EST: gi|162194974|gb|FC370586.1|FC370586
EST:     ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAG                         GATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
genomic: ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
EST: gi|37846682|gb|BJ604690.1|BJ604690
EST:     ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAG                         GATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
genomic: ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
EST: gi|162194973|gb|FC370585.1|FC370585
EST:     ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAG                         GATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
genomic: ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
EST: gi|37841206|gb|BJ599214.1|BJ599214
EST:     ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAG                         GATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
genomic: ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
EST: gi|37840603|gb|BJ598611.1|BJ598611
EST:     CTGCTGCTCGGTTCCTATTTAAACAATTTTCGGAGATGGGNAACAAGCAG                         GATAGCATCGACCCTNGTAGNCTGGTTCTTATGAAGTCGNCGGAGGAGAT
genomic: CTGCTGCTC-GCTACTATCTAAACAATTTTC-GAGATGGG-AACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGA-CCTTGTAG-CTGGTTCTTATGAAGTCGGCGGAGGAGAT
EST: gi|37832380|gb|BJ590392.1|BJ590392
EST:     ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAG                         GATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
genomic: ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
EST: gi|37832822|gb|BJ590834.1|BJ590834
EST:     ACGCTGCTGCTCGCTACTATCTAAACAA-TTTCGAGATGGGAACAAGCAG                         GATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC
genomic: ACGCTGCTGCTCGCTACTATCTAAACAATTTTCGAGATGGGAACAAGCAGgtttgcactc ... gtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcattttaaggtgcacaattttaatcttttaccatttgtatttgtgtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCCTCACGTCTCCAGATTACCTTGATAGAGACTGTTGCG
                  ttttaat  putative branch site (score: 3)
                aattttaatcttttac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctgctgtaaatgaacgtccaaaaaatcatcatatcactcttaaaagcattttaaggtgcacaattttaatcttttaccatttgtatttgtgtttgtacagGATAGCATCGACCTTGTAGCTGGTTCTTATGAAGTCGGCGGAGGAGATTCCTCACGTCTCCAGATTACCTTGATAGAGACTGTTGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT