Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcatgttcactctttgttcgtaagtgatctttgaagatgaaattgtgttagtttcatttagccactgactgatgctacaatacgtttgtctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAATGGGCACCTTGCATCTCGAACATACTTGGTTGGCGAATCAGTGACACTAG

Basic information

species Physcomitrella patens
transcript PP1S33_218V6.1
intron # 5
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|208358166|gb|DC939217.1|DC939217
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
EST: gi|208397547|gb|DC912165.1|DC912165
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
EST: gi|18347220|gb|BJ179266.1|BJ179266
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
EST: gi|100449137|gb|CJ973436.1|CJ973436
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCANCTTGA
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGA
EST: gi|162158943|gb|FC333984.1|FC333984
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
EST: gi|18360140|gb|BJ192202.1|BJ192202
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
EST: gi|208393214|gb|DC908037.1|DC908037
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
EST: gi|100398162|gb|BY954119.1|BY954119
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
EST: gi|67704523|gb|BJ964756.1|BJ964756
EST:     TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAG                         GTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT
genomic: TCGGAAGATGGGTGTACCCTCGTCTTGGATATTTTGCCTTCATCGAGGAGgtgctttctt ... ctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgttagtttcatttagccactgactgatgctacaatacgtttgtctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAATGGGCACCTTGCATCTCGAACATACTTGGTTGGCGAATCAGTGACACTAG
                                           gtctaac  putative branch site (score: 2)
                                        tttgtct  CT-rich tract
       tttcattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcatgttcactctttgttcgtaagtgatctttgaagatgaaattgtgttagtttcatttagccactgactgatgctacaatacgtttgtctaacaacagGTGGAAGCCTTTGCCATCAGCAACTTGAAGAGGGCGTTGACCTGCTTAAATGGGCACCTTGCATCTCGAACATACTTGGTTGGCGAATCAGTGACACTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctaca