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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAAAGATTATCAGACTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcccggagtttgtctgttgaccttggttgctttctgcttggaacacgtgagaatcatgtttgggttgagatttcatggtgttgggaggtacaa...

Basic information

species Physcomitrella patens
transcript PP1S367_8V6.1
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|162208677|gb|FC385074.1|FC385074
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|208398286|gb|DC912299.1|DC912299
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAANTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGA
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGA
EST: gi|37846861|gb|BJ604869.1|BJ604869
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|162224207|gb|FC399271.1|FC399271
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|208370718|gb|DC948255.1|DC948255
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|208360525|gb|DC950071.1|DC950071
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|162242295|gb|FC418872.1|FC418872
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|162242296|gb|FC418873.1|FC418873
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|208357650|gb|DC934116.1|DC934116
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGAAG-TGAAGTGTTTTGGTTGG
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGG
EST: gi|162208676|gb|FC385073.1|FC385073
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|67726076|gb|BJ976335.1|BJ976335
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|208344796|gb|DC912630.1|DC912630
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAAGTGAAGTGTTTTGGTGGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|208348734|gb|DC926409.1|DC926409
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|37823603|gb|BJ581669.1|BJ581669
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|208374571|gb|DC940760.1|DC940760
EST:     CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCAACAGTGGCTCTGGGANGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
EST: gi|100413081|gb|BY992578.1|BY992578
EST:     CTCAATTACAGCTAGGCAACAATGCTNTTTACGGGTTCAATTATATTCAG                         AGTGTAACGCCCACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT
genomic: CTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCAT

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: 33 (upstream exon), 32 (downstream exon)
Score: 22

GGGAAAGATTATCAGACTCAATTACAGCTAGGCAACAATGCTTTTTACGGGTTCAATTATATTCAGgttcagtgcc ... tgggaagcagAGTGTAACGCCAACAGTGGCTCTGGGAGGTGAAGTGTTTTGGTTGGGCCATCAGCGGAAGTCGGGCATTGGATTTGCTGGCCGATACAACACAGACAAAG




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