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

...tcaactgttgaaagttgatgcgtggatacgttcggtaaataatcacagttgagtgcagattgcatagttagtaatgcatttggcctcgtctatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACAGTGGCTACCATATCATGGGATATAAGCAGCAGCGAATCCTTCTCCCTAG

Basic information

species Physcomitrella patens
transcript PP1S79_254V6.1
intron # 6
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|162158021|gb|FC334955.1|FC334955
EST:     CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTG                         GAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
genomic: CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
EST: gi|162269550|gb|FC445106.1|FC445106
EST:     CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTG                         GAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
genomic: CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
EST: gi|208381754|gb|DC928417.1|DC928417
EST:     CAAACTTGGATACTGNTNATATACACACTGAAGTATCCGAACAAGACTTG                         GAGTTTGTGTTTATGAGCGCATCGTANGACTTGAACGAGGACTCTAGAACA
genomic: CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
EST: gi|100361020|gb|BY946873.1|BY946873
EST:     CAAACTTGGATACTGCTAATATACACACTGGAGTATCGGAACAAGACTTG                         NAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAA
genomic: CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAA
EST: gi|100447492|gb|CJ971791.1|CJ971791
EST:     CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTG                         GAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGA
genomic: CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGA
EST: gi|100362688|gb|BY947478.1|BY947478
EST:     AA-CTTGGATACTGCTAATATACACACTGAAGTATCCCGAACA-GACTTG                         GAGTTNGTGTTTATGAGCGCATCCTACGACTTTGA-CGAGGACTCTAAAAC
genomic: AAACTTGGATACTGCTAATATACACACTGAAGTATCC-GAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTT-GAACGAGGACTCTAAAAC
EST: gi|162192867|gb|FC369354.1|FC369354
EST:     CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTG                         GAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
genomic: CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
EST: gi|162162092|gb|FC338883.1|FC338883
EST:     ATATACACACTGAAGTATCCGAACAAGACTTG                         GAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
genomic: ATATACACACTGAAGTATCCGAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
EST: gi|162192772|gb|FC369623.1|FC369623
EST:     CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTG                         GAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA
genomic: CAAACTTGGATACTGCTAATATACACACTGAAGTATCCGAACAAGACTTGgtaagattta ... tatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagttgagtgcagattgcatagttagtaatgcatttggcctcgtctatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACAGTGGCTACCATATCATGGGATATAAGCAGCAGCGAATCCTTCTCCCTAG
                                      cctcgtct  CT-rich tract
                      ttagtaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tcaactgttgaaagttgatgcgtggatacgttcggtaaataatcacagttgagtgcagattgcatagttagtaatgcatttggcctcgtctatcattcagGAGTTTGTGTTTATGAGCGCATCCTACGACTTGAACGAGGACTCTAAAACAGTGGCTACCATATCATGGGATATAAGCAGCAGCGAATCCTTCTCCCTAG

- - -tgttgaa