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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactaccgttagattctctctccacaatacgttgtttttgttatccagccaagttgaattggtgctgaacaaatatgcaaggggtgcgaattttattcattttgataatgtgaatttggtcatggctgagctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATACGTTGTGGATCTCGACAAGCCTCTGGTCTTTCAG

Basic information

species Physcomitrella patens
transcript PP1S69_244V6.4
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|18353325|gb|BJ185380.1|BJ185380
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|18351021|gb|BJ183072.1|BJ183072
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGA
EST: gi|18347603|gb|BJ179650.1|BJ179650
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATC-                         TGGTGAGGACATGTCGGAGTCAACCAG
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAG
EST: gi|100359464|gb|BY984267.1|BY984267
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|208380677|gb|DC903239.1|DC903239
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100429834|gb|BY978112.1|BY978112
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAA-GAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100452240|gb|CJ975171.1|CJ975171
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100355851|gb|BY946070.1|BY946070
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|208393473|gb|DC904077.1|DC904077
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|18348706|gb|BJ180755.1|BJ180755
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAG
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAG
EST: gi|100450994|gb|CJ974544.1|CJ974544
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100369359|gb|BY948062.1|BY948062
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|208348919|gb|DC909828.1|DC909828
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100351771|gb|BY964541.1|BY964541
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100393947|gb|BY953562.1|BY953562
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100398622|gb|BY972705.1|BY972705
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|18346120|gb|BJ178163.1|BJ178163
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCA
EST: gi|100452498|gb|CJ975301.1|CJ975301
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGGAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|18357981|gb|BJ190040.1|BJ190040
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCA
EST: gi|208356750|gb|DC906412.1|DC906412
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100380870|gb|BY986795.1|BY986795
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100400386|gb|BY954451.1|BY954451
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAA-TA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100451080|gb|CJ974587.1|CJ974587
EST:     TTCGTACGCTCCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCA
genomic: TTCGTACGCTCC-AGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCA
EST: gi|208397670|gb|DC908571.1|DC908571
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100371282|gb|BY986027.1|BY986027
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100432383|gb|BY960457.1|BY960457
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAA-TA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100425925|gb|BY977189.1|BY977189
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGGAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100382936|gb|BY986977.1|BY986977
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100423152|gb|BY958172.1|BY958172
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAGATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100396503|gb|BY990157.1|BY990157
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|18354418|gb|BJ186474.1|BJ186474
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100360954|gb|BY946840.1|BY946840
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGNAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100358689|gb|BY946642.1|BY946642
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100366893|gb|BY948263.1|BY948263
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100430151|gb|BY978272.1|BY978272
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100431438|gb|BY960197.1|BY960197
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|100360887|gb|BY965952.1|BY965952
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAA-TA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
EST: gi|18356290|gb|BJ188349.1|BJ188349
EST:     TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCG                         TGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA
genomic: TTTCGTACGCTCCAGCAGTTTCGCATTGGCCGTGTTAGTGATTACAATCGgtactaccgt ... ctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgaattttattcattttgataatgtgaatttggtcatggctgagctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATACGTTGTGGATCTCGACAAGCCTCTGGTCTTTCAG
                                           agctgac  putative branch site (score: 3)
     ttttattcattttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactaccgttagattctctctccacaatacgttgtttttgttatccagccaagttgaattggtgctgaacaaatatgcaaggggtgcgaattttattcattttgataatgtgaatttggtcatggctgagctgactgcagTGGTGAGGACATGTCGGAGTCAACCAGGCCCAGAAGAGAGGAAAGAAAATACGTTGTGGATCTCGACAAGCCTCTGGTCTTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA