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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcatttttcgtgacgcctagtctagtgagcttgttgtcgtacgccgaattgtttccaatttttatttgtattagtatgtgtgtctagtgtgcttgagatttaaatcttgttgacctgtttgtaaaatttctttattcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACCTTATAAATGGTCTTTTGAAAAAAG

Basic information

species Physcomitrella patens
transcript PP1S76_8V6.1
intron # 3
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|208377393|gb|DC906648.1|DC906648
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100412613|gb|BY974821.1|BY974821
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|162249661|gb|FC426801.1|FC426801
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|18368462|gb|BJ200547.1|BJ200547
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAG
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAG
EST: gi|100393326|gb|BY989824.1|BY989824
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100375234|gb|BY948810.1|BY948810
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100396545|gb|BY990178.1|BY990178
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100432068|gb|BY978649.1|BY978649
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100360599|gb|BY984199.1|BY984199
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGGCCAA-CCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAAC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGG-CCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAAC
EST: gi|67716232|gb|BJ966492.1|BJ966492
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|208383670|gb|DC907061.1|DC907061
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100362831|gb|BY947550.1|BY947550
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|18329187|gb|BJ161193.1|BJ161193
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100391024|gb|BY953034.1|BY953034
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|162183972|gb|FC359342.1|FC359342
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100387996|gb|BY988469.1|BY988469
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|162154400|gb|FC330207.1|FC330207
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100445704|gb|CJ970003.1|CJ970003
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|162258357|gb|FC434284.1|FC434284
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100358802|gb|BY946698.1|BY946698
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|162157552|gb|FC333810.1|FC333810
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100437296|gb|BY961449.1|BY961449
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100452031|gb|CJ975065.1|CJ975065
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|67719020|gb|BJ969279.1|BJ969279
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100376261|gb|BY986100.1|BY986100
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|208380336|gb|DC907661.1|DC907661
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100417188|gb|BY957211.1|BY957211
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|67704515|gb|BJ964748.1|BJ964748
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|67718927|gb|BJ969186.1|BJ969186
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100418352|gb|BY957377.1|BY957377
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
EST: gi|100365284|gb|BY966902.1|BY966902
EST:     TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAG                         GTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC
genomic: TCTTGATGCGTTTCGATTCTCCATCGCCTGGTCGAGAATCATGAAACTAGgtcatttttc ... tcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttgagatttaaatcttgttgacctgtttgtaaaatttctttattcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACCTTATAAATGGTCTTTTGAAAAAAG
                 tgttgac  putative branch site (score: 3)
                                    tttctttattcgctt  putative PPT
                         tgtttgtaaaatttct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcatttttcgtgacgcctagtctagtgagcttgttgtcgtacgccgaattgtttccaatttttatttgtattagtatgtgtgtctagtgtgcttgagatttaaatcttgttgacctgtttgtaaaatttctttattcgcttgcagGTGGGCCAAACCCAGTCGTGAACCAAGAAGGAGTGGCGTACTACAATAACCTTATAAATGGTCTTTTGAAAAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG