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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGGATCAGAGGTGGGAGCGAGGGAGTTTCTGGGGCTGGAATCTTTGGGCTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctaggttattttcttgattgtaagggttgaaattcttcaggttatgcaaggcatgcttctttacgcttgtttgagatctggatttttggagtgg...

Basic information

species Physcomitrella patens
transcript PP1S92_76V6.3
intron # 2
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|208380028|gb|DC914578.1|DC914578
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|67569956|gb|BJ942780.1|BJ942780
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|18350506|gb|BJ182557.1|BJ182557
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|18348078|gb|BJ180125.1|BJ180125
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100445839|gb|CJ970138.1|CJ970138
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100390301|gb|BY952709.1|BY952709
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|208360265|gb|DC943009.1|DC943009
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|67507727|gb|BJ940606.1|BJ940606
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|208389789|gb|DC938337.1|DC938337
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|208386851|gb|DC941569.1|DC941569
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|100399889|gb|BY990672.1|BY990672
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|67570064|gb|BJ942888.1|BJ942888
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|208366745|gb|DC931402.1|DC931402
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
EST: gi|18330584|gb|BJ162590.1|BJ162590
EST:     CTAGCTTCTGGANNNNNNNGCGCAAAATTTTGATCTACGGCGTTGTGAAG                         GTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA
genomic: CTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCA

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: 35 (upstream exon), 29 (downstream exon)
Score: 12

GAAGGATCAGAGGTGGGAGCGAGGGAGTTTCTGGGGCTGGAATCTTTGGGCTAGCTTCTGGATTTTTTTGCGCAAAATTTTGATCTACGGCGTTGTGAAGgtgggtctag ... gtggtttcagGTAGTTGACTTGGAGATACGCAGAGATGGCGGGGCGAGGGATTAAAGGGCACATTGCAGTCTGCTCTACAACACTTCTCTTGATTCTTAATCTAATTGTT




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