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 5'  3'   		2  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAAGGAATGGACACTCTGGTCGGCGGTGGTTGTCGGCAAAGTTTTCTGTGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcctgcagccacaaccgcccagccaattccctcattgccattgaattatcagtctccatttgctcccatcggcaagcttgaagaagcacaagacaaacattagaagtaatcaggctttcggtaaaattgaagcagtgttggaagatctgaccgggaatcccttgtgttgcag

Basic information

species Physcomitrella patens
transcript PP1S79_182V6.1
intron # 1
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|18354090|gb|BJ186145.1|BJ186145
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCA                         AAGCGAAAGTGAAG
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAG
EST: gi|100390158|gb|BY989238.1|BY989238
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGGGCA                         AAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
EST: gi|100392547|gb|BY971764.1|BY971764
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCA                         AAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
EST: gi|100424638|gb|BY976740.1|BY976740
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCA                         AAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
EST: gi|18346476|gb|BJ178519.1|BJ178519
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCNATGAGCA                         AAGCGAAAGTGAAGGTCGAATGCAANGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
EST: gi|18357146|gb|BJ189205.1|BJ189205
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCA                         AAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
EST: gi|18354991|gb|BJ187050.1|BJ187050
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCA                         AAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
EST: gi|100415424|gb|BY992838.1|BY992838
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCA                         AAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
EST: gi|208394328|gb|DC904148.1|DC904148
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCA                         AAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
EST: gi|18349050|gb|BJ181099.1|BJ181099
EST:     TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCA                         AAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT
genomic: TGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACT

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: 32 (upstream exon), 27 (downstream exon)
Score: 3

AGCAAGGAATGGACACTCTGGTCGGCGGTGGTTGTCGGCAAAGTTTTCTGTGATCAGTGCATTCAGAACAAAGTCTTCCCATACGCACATCCGATGAGCAgtaggttcct ... tgtgttgcagAAGCGAAAGTGAAGGTCGAATGCAAGGATGCATCGGGGAATGTCGTGGACTACGCCGATGCATCAACAAATTTCCTCGGAGATTTCATCGTCAGTTTCAA




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