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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgataatctttctcagagtggattcgattctctttgatcttccatgcaattgactatcaataacttgaatttggagaagcttagtggtttgctttggaactacccttgttgacaccagacttgtaatacctcttgctttatgaaacatattttttttgacgcataccttctgttgatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAATATAGTGGGTCTCGCAGAGATGGGCTTCCTCAAAATTGAGTCAGCTGTGA

Basic information

species Physcomitrella patens
transcript PP1S95_68V6.2
intron # 8
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|22491992|gb|BU051915.1|BU051915
EST:     CCTGGGGTGCCACGGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162186380|gb|FC362936.1|FC362936
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162188953|gb|FC364343.1|FC364343
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162159246|gb|FC335099.1|FC335099
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|100388844|gb|BY988720.1|BY988720
EST:     CCTGGNGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162205800|gb|FC381038.1|FC381038
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162164956|gb|FC342147.1|FC342147
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|37827597|gb|BJ585609.1|BJ585609
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|22131496|gb|BQ826646.1|BQ826646
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162269678|gb|FC444883.1|FC444883
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162164957|gb|FC342148.1|FC342148
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162267940|gb|FC444021.1|FC444021
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162158770|gb|FC335098.1|FC335098
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|37834907|gb|BJ592919.1|BJ592919
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162267939|gb|FC444020.1|FC444020
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAAT
EST: gi|162186381|gb|FC362937.1|FC362937
EST:     CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAG                         ATTCGTGTTTT
genomic: CCTGGGGTGCCACCGCTGATATCGAGATCACTCGACTTGTTCGCAGACAGgtgataatct ... gatccaccagATTCGTGTTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttgctttatgaaacatattttttttgacgcataccttctgttgatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAATATAGTGGGTCTCGCAGAGATGGGCTTCCTCAAAATTGAGTCAGCTGTGA
       tttatgaaacatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgataatctttctcagagtggattcgattctctttgatcttccatgcaattgactatcaataacttgaatttggagaagcttagtggtttgctttggaactacccttgttgacaccagacttgtaatacctcttgctttatgaaacatattttttttgacgcataccttctgttgatccaccagATTCGTGTTTTTGGTTCGTATGGAGGTAGAGCCAGGCAGGATCTTCCAAATATAGTGGGTCTCGCAGAGATGGGCTTCCTCAAAATTGAGTCAGCTGTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG