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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatctatttgaattctcactttccggttacaccactatgcatctatcataactgttgattgctggccagctactccaatttgatgtgtctcctgattgacaaatcgacgttcttcttgagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTCAGCGGTTTGAAGGATCTTCTTTCTGGCAACGCG

Basic information

species Physcomitrella patens
transcript PP1S94_133V6.1
intron # 2
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|67725469|gb|BJ975728.1|BJ975728
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|162217774|gb|FC394074.1|FC394074
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|162170350|gb|FC346547.1|FC346547
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|208397428|gb|DC916354.1|DC916354
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|162233171|gb|FC408994.1|FC408994
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|208388411|gb|DC945631.1|DC945631
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|208368324|gb|DC955521.1|DC955521
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|18338002|gb|BJ170026.1|BJ170026
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|208350444|gb|DC926191.1|DC926191
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
EST: gi|208388518|gb|DC953154.1|DC953154
EST:     AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTG                         AGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC
genomic: AGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGGCTGgtaaatctat ... gagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctccaatttgatgtgtctcctgattgacaaatcgacgttcttcttgagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTCAGCGGTTTGAAGGATCTTCTTTCTGGCAACGCG
                     gattgac  putative branch site (score: 3)
                                     ttcttcttg  putative PPT
     atttgat  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatctatttgaattctcactttccggttacaccactatgcatctatcataactgttgattgctggccagctactccaatttgatgtgtctcctgattgacaaatcgacgttcttcttgagcttgcagAGCAGTGAATTGCCGTGGCAGTTGCCGAGGAAGGGTTTCAGTCTTGACCTCAGCGGTTTGAAGGATCTTCTTTCTGGCAACGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG