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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctacagtttttatgaatcagacttttacaagttcgctctgttttaataaatgatatggtagttaaaattttttcgaccaactcatctagatttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAGCTTGAACTGATACCGTATAAGGAGGGTTCTCGTGGACCAGCCGAAGCTG

Basic information

species Physcomitrella patens
transcript PP1S192_39V6.4
intron # 15
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|37850762|gb|BJ608770.1|BJ608770
EST:     TATTCGTGGGGATCAACAACATTTTGTCCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|37821380|gb|BJ579446.1|BJ579446
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|37842189|gb|BJ600197.1|BJ600197
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|37851014|gb|BJ609022.1|BJ609022
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|37841660|gb|BJ599668.1|BJ599668
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|208381262|gb|DC919152.1|DC919152
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|162173094|gb|FC349200.1|FC349200
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|162218573|gb|FC394539.1|FC394539
EST:     GAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: GAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|37850441|gb|BJ608449.1|BJ608449
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|37843663|gb|BJ601671.1|BJ601671
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|7584227|gb|AW700124.1|AW700124
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|162279045|gb|FC455072.1|FC455072
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
EST: gi|162227769|gb|FC402697.1|FC402697
EST:     TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGG                         GTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG
genomic: TATTCGTGGGGATCAACAACATTTTGTGCGAAGGGATGAATTGCGGgtacttggac ... tttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataaatgatatggtagttaaaattttttcgaccaactcatctagatttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAGCTTGAACTGATACCGTATAAGGAGGGTTCTCGTGGACCAGCCGAAGCTG
 ttttaat  putative branch site (score: 3)
                                             tttctatc  putative PPT
       atatggtagttaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctacagtttttatgaatcagacttttacaagttcgctctgttttaataaatgatatggtagttaaaattttttcgaccaactcatctagatttctatcagGTTGCATGGGAGATATTTACACCATTGCTACATCGAATAGATGTCGGAAAGCTTGAACTGATACCGTATAAGGAGGGTTCTCGTGGACCAGCCGAAGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG