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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgcaacttctaatcatgcacaccacacatttgattacttattaagggaattctgtttagtattattagtccgtgaatgataaactggatgttattgttgctttggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATCAATGACAATCAAGCGGAATTCTTGCGTCTAATCAATGAAGCTGGTGCCG

Basic information

species Physcomitrella patens
transcript PP1S58_148V6.1
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|22491724|gb|BU051647.1|BU051647
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|162165067|gb|FC341621.1|FC341621
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCTAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|208390218|gb|DC949486.1|DC949486
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|162165066|gb|FC341620.1|FC341620
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCTAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|67726633|gb|BJ976892.1|BJ976892
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|67726679|gb|BJ976938.1|BJ976938
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|208374139|gb|DC952570.1|DC952570
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|22133334|gb|BQ827679.1|BQ827679
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|67726518|gb|BJ976777.1|BJ976777
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|208362766|gb|DC950566.1|DC950566
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|162260011|gb|FC435314.1|FC435314
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|162249316|gb|FC423986.1|FC423986
EST:     CTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: CTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|67724052|gb|BJ974311.1|BJ974311
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|162200955|gb|FC377358.1|FC377358
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCTAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|67720762|gb|BJ971021.1|BJ971021
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
EST: gi|162163441|gb|FC339975.1|FC339975
EST:     TTTCAAGCCTTGAGGACAATGGTTCAAGCTAATCCTCAGATTCTTCAG                         CCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC
genomic: TTTCAAGCCTTGAGGACAATGGTTCAAGCAAATCCTCAGATTCTTCAGgtattgcaac ... tggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtattattagtccgtgaatgataaactggatgttattgttgctttggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATCAATGACAATCAAGCGGAATTCTTGCGTCTAATCAATGAAGCTGGTGCCG
                                       ttgcttt  CT-rich tract
                 aatgataaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattgcaacttctaatcatgcacaccacacatttgattacttattaagggaattctgtttagtattattagtccgtgaatgataaactggatgttattgttgctttggaacgaagCCCATGCTGCAGGAGTTGGGCAAGCAGAATCCTGCTCTTCTGCGTCTTATCAATGACAATCAAGCGGAATTCTTGCGTCTAATCAATGAAGCTGGTGCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG