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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtggtcgctgcctgcttttccaatccaatagtgatgcatagagaaattactgttgctgaatcaatgaatcttaatatcgacgcggattgcatggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTCCTAGGAGGCACACTGGTGCCCTACTATTTAACTGAAGAGGAGAATTGGG

Basic information

species Physcomitrella patens
transcript PP1S341_73V6.2
intron # 5
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|100386514|gb|BY951310.1|BY951310
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|100406162|gb|BY991570.1|BY991570
EST:     NAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAANAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|162185274|gb|FC361784.1|FC361784
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|162173953|gb|FC349753.1|FC349753
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|162187116|gb|FC362898.1|FC362898
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|162158810|gb|FC335333.1|FC335333
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|100435045|gb|BY979058.1|BY979058
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|100446505|gb|CJ970804.1|CJ970804
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|162165683|gb|FC342250.1|FC342250
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|162193527|gb|FC370430.1|FC370430
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|162171492|gb|FC346767.1|FC346767
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|67568954|gb|BJ941778.1|BJ941778
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
EST: gi|162157215|gb|FC332849.1|FC332849
EST:     AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGA                         GTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC
genomic: AAGGGGTTGCACAAGTTTTGAATGCCCTCATCCGTGATGAAAAAGATGGAgtaatttctc ... catggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattactgttgctgaatcaatgaatcttaatatcgacgcggattgcatggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTCCTAGGAGGCACACTGGTGCCCTACTATTTAACTGAAGAGGAGAATTGGG
                        tcttaat  putative branch site (score: 3)
                  aatgaatcttaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtggtcgctgcctgcttttccaatccaatagtgatgcatagagaaattactgttgctgaatcaatgaatcttaatatcgacgcggattgcatggtgcagGTCCTAGTTCCCATTCCACAATATCCTCTATACTCTGCAACAATTCAGCTCCTAGGAGGCACACTGGTGCCCTACTATTTAACTGAAGAGGAGAATTGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA