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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTGAATCTTCTTGGAAAGTGGAAGGAGTCTGAGTACTCGTCGAGTGGTCAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAGgtattgcctattacctgagtacccgtcacagtacagactagtggattgtgtgtagtttctgcacttcatcactgtgacaactcccactgattcagataac...

Basic information

species Physcomitrella patens
transcript PP1S114_48V6.1
intron # 5
splice site 5'
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|162262091|gb|FC437379.1|FC437379
EST:     CAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAG                         CCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: CAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
EST: gi|37839616|gb|BJ597624.1|BJ597624
EST:     TCAGTCCCCCAACAAG                         CCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: TCAGTCCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
EST: gi|208368248|gb|DC951514.1|DC951514
EST:     AGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCCAACAAG                         CCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: AGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGT-CCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
EST: gi|37839617|gb|BJ597625.1|BJ597625
EST:     CAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAG                         CCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: CAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
EST: gi|37835924|gb|BJ593936.1|BJ593936
EST:     TCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAG                         CCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: TCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
EST: gi|162179031|gb|FC356432.1|FC356432
EST:     CAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAG                         CCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: CAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
EST: gi|162262090|gb|FC437378.1|FC437378
EST:     ACATCAGTCCCCCAACAAG                         CCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: ACATCAGTCCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
EST: gi|208375228|gb|DC948753.1|DC948753
EST:     TACATCAGTCCCCCAACAAG                         CCTNGGAGATATCGNTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: TACATCAGTCCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
EST: gi|208388528|gb|DC957082.1|DC957082
EST:     CAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAG                         CCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT
genomic: CAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAGgtattgccta ... ttcttgccagCCTTGGAGATATCGTTGCCAACCCTTTCCACGCCATTTTCTACTTGACTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGTGAATCTTCTTGGAAAGTGGAAGGAGTCTGAGTACTCGTCGAGTGGTCAGCTCATCCCAGTTGGAGGACTTGTCTACTACATCAGTCCCCCAACAAGgtattgcctattacctgagtacccgtcacagtacagactagtggattgtgtgtagtttctgcacttcatcactgtgacaactcccactgattcagataac

- - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA