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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcacctcttagatgataccactctatcgtcacaacttgaatgagatagcatcctggaaccgcatctatagaatgacttctttctgtgcaagggtatcaatgtaaagagacctgaattctccttagcacattcttagaggtcgcgtttgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC

Basic information

species Physcomitrella patens
transcript PP1S94_154V6.1
intron # 1
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|208361602|gb|DC942845.1|DC942845
EST:     GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208359835|gb|DC934864.1|DC934864
EST:     GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208365450|gb|DC950917.1|DC950917
EST:     GTNGGG-TTTTTCNAATGCCCTAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208354165|gb|DC957399.1|DC957399
EST:     GTTGGGNTNTTTCAAATGCCCGAGCACAATGCGTTTGGCCCAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208385585|gb|DC937130.1|DC937130
EST:     GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|67712661|gb|BJ966110.1|BJ966110
EST:     GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208390700|gb|DC937856.1|DC937856
EST:     GTTGGGCTCTTTCAAATGCCCTAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208385576|gb|DC937121.1|DC937121
EST:     GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208354175|gb|DC957409.1|DC957409
EST:     GTTGGGNTTTTTCAAATGCCCGAGCACAATGCG-TTGGNCNAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208370394|gb|DC931806.1|DC931806
EST:     GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208365296|gb|DC950767.1|DC950767
EST:     AATGCCCGAGCACNATGCGTTT-GNCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCNAGCATGCGTGGAGGATCTCTA
genomic: AATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208372504|gb|DC940779.1|DC940779
EST:     GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
EST: gi|208389871|gb|DC937702.1|DC937702
EST:     GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAG                         AGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA
genomic: GTTGGGCTCTTTCAAATGCCCGAGCACAATGCGTTTGGCCAAGCTTTCAGgtcacctctt ... tgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaagagacctgaattctccttagcacattcttagaggtcgcgtttgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC
                           attctta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcacctcttagatgataccactctatcgtcacaacttgaatgagatagcatcctggaaccgcatctatagaatgacttctttctgtgcaagggtatcaatgtaaagagacctgaattctccttagcacattcttagaggtcgcgtttgtacttcagAGCATACGATGCAAAGGATGGGGAGCGTCAAGCATGCGTGGAGGATCTCTATCGCGCTAATCATACTCACCAGACCTACGATTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT