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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATACCTTACTAGCCTTGGCAAGTGGTGCAGCTGGAGGTCCCAAGATCTCAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctaccatggacatatggagctggtcatagcttgcaactggttttcagcagtatttaacatctcttcaaagttggtcgtccactcttcgtagtgttagctcttcctcagagatttaataggacaaatacaaggcccctgatcggttcttccccttcatgcag

Basic information

species Physcomitrella patens
transcript PP1S90_220V6.2
intron # 13
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|162153999|gb|FC330234.1|FC330234
EST:     CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|162152238|gb|FC328217.1|FC328217
EST:     CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|208372841|gb|DC956242.1|DC956242
EST:     CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|162169774|gb|FC345311.1|FC345311
EST:     GATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: GATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|162152239|gb|FC328218.1|FC328218
EST:     CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|67726457|gb|BJ976716.1|BJ976716
EST:     CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|162186917|gb|FC362595.1|FC362595
EST:     CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|162169775|gb|FC345312.1|FC345312
EST:     CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|162154000|gb|FC330235.1|FC330235
EST:     CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: CAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
EST: gi|162169382|gb|FC345738.1|FC345738
EST:     AGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCA                         GTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG
genomic: AGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctac ... cttcatgcagGTCTTGCAAGGTCTAGCTAAGTCAATTGCCTCTGACGGTGAGGGGGCGACG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGATACCTTACTAGCCTTGGCAAGTGGTGCAGCTGGAGGTCCCAAGATCTCAGATATCAACAGTGAAGAAGCTCGTCAGCTGCAGGCAGCTCTTGATGCAgtgagtctaccatggacatatggagctggtcatagcttgcaactggttttcagcagtatttaacatctcttcaaagttggtcgtccactcttcgtagtgttagctcttcctcagagatttaataggacaaatacaaggcccctgatcggttcttccccttcatgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC