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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGTGCGAGGCTGATGTTGTTGCTGGAAATGCTCCCGCGGCTCCTCCTGTTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcctatctaggcattgtattggacattaagatccctgctcttgaatgatcagaatgtcttcacatgtttcctgagcttctttcttgtttctatt...

Basic information

species Physcomitrella patens
transcript PP1S450_21V6.2
intron # 1
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|67719128|gb|BJ969387.1|BJ969387
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|208362694|gb|DC931059.1|DC931059
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|208354190|gb|DC902446.1|DC902446
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|162234870|gb|FC410643.1|FC410643
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100423621|gb|BY958333.1|BY958333
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100386209|gb|BY987876.1|BY987876
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100379688|gb|BY949894.1|BY949894
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATTGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|18348143|gb|BJ180190.1|BJ180190
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|162163264|gb|FC339382.1|FC339382
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100369089|gb|BY985015.1|BY985015
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|162218488|gb|FC395065.1|FC395065
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100363338|gb|BY984475.1|BY984475
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|208400620|gb|DC904596.1|DC904596
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100388664|gb|BY970812.1|BY970812
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100370598|gb|BY948423.1|BY948423
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|208344405|gb|DC912764.1|DC912764
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100436499|gb|BY961248.1|BY961248
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|162268623|gb|FC443677.1|FC443677
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|162227018|gb|FC403362.1|FC403362
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|162265941|gb|FC442944.1|FC442944
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|100357521|gb|BY946437.1|BY946437
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|162176323|gb|FC353508.1|FC353508
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
EST: gi|208345086|gb|DC909448.1|DC909448
EST:     TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTG                         GTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC
genomic: TTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 9 (upstream exon), 34 (downstream exon)
Score: 5

GGAGTGCGAGGCTGATGTTGTTGCTGGAAATGCTCCCGCGGCTCCTCCTGTTCCTGCCAAACCCAAGGCTCCGGAGGGTACACCCAGAATTTCTCCATTGgtgagagcct ... tcggctgcagGTAATGCCTGCGAGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCCGCTTTTCAAGAGACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTAT




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