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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGCGAGATCTGGCGGGAAGATAGTGTTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaactttccgtactccctccttgtatcattttgtagccacgttgttgcgtgttttctgattgaaatttatctcgagacctggcagtgagtataaa...

Basic information

species Physcomitrella patens
transcript PP1S450_16V6.1
intron # 5
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|208398417|gb|DC912346.1|DC912346
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
EST: gi|208350179|gb|DC926120.1|DC926120
EST:     -TTAAAGGANTATACTCAGGTCTAGCAGGCAACCTCGCTGGTG-TTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
EST: gi|67718057|gb|BJ968316.1|BJ968316
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
EST: gi|100413283|gb|BY956595.1|BY956595
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
EST: gi|100407659|gb|BY991791.1|BY991791
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
EST: gi|162187904|gb|FC364478.1|FC364478
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
EST: gi|100383969|gb|BY987226.1|BY987226
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTTCGGGGGTGTCT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTT-CGTGGGTGTCT
EST: gi|208398080|gb|DC904385.1|DC904385
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCNATGAAAAGGAANTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
EST: gi|67726554|gb|BJ976813.1|BJ976813
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
EST: gi|162207067|gb|FC382181.1|FC382181
EST:     TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACC                         GGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT
genomic: TTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTT

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), 32 (downstream exon)
Score: 7

GCTGCGAGATCTGGCGGGAAGATAGTGTTTAAAGGATTATACTCAGGTCTAGCAGGCAACCTCGCTGGTGTTTTACCgtccgtaact ... gataccacagGGCATCAGCCATTTTCGTGGGTGTCTATGAACCGATGAAAAGGAAGTTGTTGGATATCTTTCCAGACCACCTCAGCTCTGTTGCACACTTG




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