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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTTGGATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctctgcttttccactctgaactaggcaacgtgttaggcatgtgagttgttttaggaggttttggagatggggtcggttggttgatccagttag...

Basic information

species Physcomitrella patens
transcript PP1S505_6V6.1
intron # 6
splice site 5'
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|208348255|gb|DC905497.1|DC905497
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|208350053|gb|DC910288.1|DC910288
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|208372097|gb|DC940279.1|DC940279
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|100352660|gb|BY945383.1|BY945383
EST:     GATGTCGGGTGTGGAATTGGGGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAGATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|208353412|gb|DC938689.1|DC938689
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAN                         TGGAGCCTCANTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|100401171|gb|BY990866.1|BY990866
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|100422729|gb|BY957971.1|BY957971
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGA
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGA
EST: gi|208377072|gb|DC910846.1|DC910846
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCNCGGCATTTAN                         TGGANCCTCANTGACTGGTCTAA-CAACAATGACACTCAAATTGCNCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|100444750|gb|BY982579.1|BY982579
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAATGACTGGTCTAAACA-CAATGACACT
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACT
EST: gi|100359507|gb|BY947022.1|BY947022
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|100435518|gb|BY960952.1|BY960952
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGGATCGCGGCATTTAG                         GGGAGCCTCAGTGACTGGTC
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTC
EST: gi|100399512|gb|BY972756.1|BY972756
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|208400164|gb|DC904812.1|DC904812
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGANCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|208391832|gb|DC942352.1|DC942352
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|100440118|gb|BY980404.1|BY980404
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGGATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGGCTAAA
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAA
EST: gi|208376766|gb|DC902947.1|DC902947
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAN                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|208350009|gb|DC910244.1|DC910244
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
EST: gi|208362445|gb|DC930978.1|DC930978
EST:     GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAG                         TGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG
genomic: GATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctc ... tgtacttcagTGGAGCCTCAGTGACTGGTCTAAACAACAATGACACTCAAATTGCGCGTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTGTTGGATGTCGGGTGTGGAATTGGTGGTCCTGCTCGTGGAATCGCGGCATTTAGgcgagttctctgcttttccactctgaactaggcaacgtgttaggcatgtgagttgttttaggaggttttggagatggggtcggttggttgatccagttag

- - - - - - - - - - -  TGGTGG