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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGATGCTTTTCTGATGAAGCTGAATGCATGTGCCAAAGGAGAACAAGCCTTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCCgtatgcatgtttctactcttgtaactcttcaaatcttcattgctgagttctgaaggcttttctgacaaaagttagggggacctgtgtggtttattcttgaaaagttaaccagtaagtgtggtttttgtgacatgaagtgataagtgcattaaggaagccttgcgtgttcttcttgcag

Basic information

species Physcomitrella patens
transcript PP1S83_162V6.1
intron # 8
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|208347445|gb|DC909752.1|DC909752
EST:     TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCC                         GTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCAC
genomic: TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCCgtatgcatgt ... cttcttgcagGTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCAC
EST: gi|162240627|gb|FC419365.1|FC419365
EST:     TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCC                         GTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCAC
genomic: TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCCgtatgcatgt ... cttcttgcagGTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCAC
EST: gi|162167398|gb|FC343101.1|FC343101
EST:     TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCC                         GTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCAC
genomic: TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCCgtatgcatgt ... cttcttgcagGTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCAC
EST: gi|162177829|gb|FC355079.1|FC355079
EST:     TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCC                         GTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCAC
genomic: TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCCgtatgcatgt ... cttcttgcagGTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCAC
EST: gi|162150536|gb|FC326392.1|FC326392
EST:     TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCC                         GTATGTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACC
genomic: TTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCCgtatgcatgt ... cttcttgcagGTA----CGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACC

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), 29 (downstream exon)
Score: 3

TTGATGCTTTTCTGATGAAGCTGAATGCATGTGCCAAAGGAGAACAAGCCTTCACGTTTGTGATTGATGATCCTTCAGGCAACAGCTACATTGAGAATCCgtatgcatgt ... cttcttgcagGTACGCACCTAATTCAGACCCCTTGTTGTCAACTGAATACTACGACCGCACTTCAGAACAACAAGAAGCATTAGGTTTTCTTGCCCAGTCCACGTCTTCT




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