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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCGAGATGCGTATGACATCGGGAGTTCAAGTTGCTCAGCTAGCGTTGAAGCATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcggatattttgcagacaattcgtctaaattgaagacttgattgtggcactcggattgttgtggcaccagtgctctttgtttacattttgtcagatcagcaatattttttgacttttaaatgaactgttgcattgttatccgcag

Basic information

species Physcomitrella patens
transcript PP1S14_318V6.1
intron # 4
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|100381151|gb|BY950004.1|BY950004
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGANAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100410542|gb|BY992154.1|BY992154
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100424156|gb|BY958342.1|BY958342
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|162235944|gb|FC411687.1|FC411687
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|67709869|gb|BJ965685.1|BJ965685
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|67719536|gb|BJ969795.1|BJ969795
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|18372410|gb|BJ204012.1|BJ204012
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|162159573|gb|FC335751.1|FC335751
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|18366328|gb|BJ198407.1|BJ198407
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100399854|gb|BY990655.1|BY990655
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100359179|gb|BY965630.1|BY965630
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGTAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|18344610|gb|BJ176651.1|BJ176651
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGG
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGG
EST: gi|100422820|gb|BY958017.1|BY958017
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|162270585|gb|FC446510.1|FC446510
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100361055|gb|BY946891.1|BY946891
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGANAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100444272|gb|BY982301.1|BY982301
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAT
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100426210|gb|BY958783.1|BY958783
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGCCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100414734|gb|BY956837.1|BY956837
EST:     ATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTTCGCGG-CAG                         GCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGGAAGAAGTTGA
genomic: ATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTT-CGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGA
EST: gi|67710256|gb|BJ965919.1|BJ965919
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100390114|gb|BY989194.1|BY989194
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100410928|gb|BY956252.1|BY956252
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100449851|gb|CJ973968.1|CJ973968
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|67719741|gb|BJ970000.1|BJ970000
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|18343869|gb|BJ175907.1|BJ175907
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|18357197|gb|BJ189256.1|BJ189256
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|67569334|gb|BJ942158.1|BJ942158
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100449557|gb|CJ973819.1|CJ973819
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|208361374|gb|DC930371.1|DC930371
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100436137|gb|BY979398.1|BY979398
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|162195399|gb|FC370868.1|FC370868
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|67716301|gb|BJ966561.1|BJ966561
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100353224|gb|BY945668.1|BY945668
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100400831|gb|BY972965.1|BY972965
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|100381386|gb|BY950102.1|BY950102
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|18375025|gb|BJ206603.1|BJ206603
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|67717273|gb|BJ967532.1|BJ967532
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA
EST: gi|18326030|gb|BJ158029.1|BJ158029
EST:     CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAG                         TCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAACGGGAAAGAAGTTGAA
genomic: CATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAA

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: 32 (upstream exon), 33 (downstream exon)
Score: 18

GCGAGATGCGTATGACATCGGGAGTTCAAGTTGCTCAGCTAGCGTTGAAGCATCGCCAGAACAAGCATCAGCGACAGAGAATTGTTCTTTTCGCGGGCAGgtaagtcgga ... ttatccgcagTCCTGTTCTGGCAGATAAGGCGGTCCTGGAGGGAATGGGAAAGAAGTTGAAAAAGAACAACGTGGCTTTGGACATAGTGAGTTTCGGTGAAGATGATGGT




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