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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCCAACATGGTGGACACAAAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAGgtgagatttcgaagatcatcaagaaagttcttcatggtcgcagaagtgatacctacgccattgtaaggaagttttgctttgtgtaagttaattctaaatacttagtcgttgtggaaattgtgcag

Basic information

species Physcomitrella patens
transcript PP1S269_30V6.2
intron # 9
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|208353961|gb|DC914101.1|DC914101
EST:     AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAG                         ATGTGTCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
genomic: AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAGgtgagatttc ... aattgtgcagATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
EST: gi|208381414|gb|DC927850.1|DC927850
EST:     AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAG                         ATGTGTCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
genomic: AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAGgtgagatttc ... aattgtgcagATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
EST: gi|208344725|gb|DC905174.1|DC905174
EST:     AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAG                         ATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
genomic: AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAGgtgagatttc ... aattgtgcagATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
EST: gi|208356794|gb|DC926805.1|DC926805
EST:     AGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCCAG                         ATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTT
genomic: AGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATT-CCAGgtgagatttc ... aattgtgcagATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTT
EST: gi|208363842|gb|DC943299.1|DC943299
EST:     AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAG                         ATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
genomic: AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAGgtgagatttc ... aattgtgcagATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
EST: gi|100395052|gb|BY953582.1|BY953582
EST:     AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAG                         ATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG
genomic: AAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAGgtgagatttc ... aattgtgcagATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTG

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: 13 (upstream exon), 28 (downstream exon)
Score: 3

GCCCAACATGGTGGACACAAAGTATTAAGAATGCCGTTCCATTTCTGGGGATGATTCCATTCATTCCAGgtgagatttc ... aattgtgcagATGTATCTGTGACTGTAGTAGTCATCTTTTTGATGATGTCGGTGGCAGTTGCCCCTACTGTGGGCTACAA




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