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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTACGACTCTACCCATGGGCTCCTCAAGTCCGAGGTGAATGCTGTAGACGACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctatattttggtgttcttacatggtcggtctcggttgtggctgatgcttccgcgaactggtgcgatgtcccctggatgaattcgtcctcatacaaagttctcgacctgtccgcag

Basic information

species Physcomitrella patens
transcript PP1S309_84V6.1
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|100416916|gb|BY993152.1|BY993152
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|208361278|gb|DC930864.1|DC930864
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|208353409|gb|DC938686.1|DC938686
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|67709777|gb|BJ965593.1|BJ965593
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|100418832|gb|BY975761.1|BY975761
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTT
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTT
EST: gi|208370793|gb|DC936197.1|DC936197
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|208389928|gb|DC937759.1|DC937759
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTG
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTG
EST: gi|208393363|gb|DC942475.1|DC942475
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|67716800|gb|BJ967059.1|BJ967059
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTG
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTG
EST: gi|100370194|gb|BY985289.1|BY985289
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTG
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTG
EST: gi|100407403|gb|BY991684.1|BY991684
EST:     GACAATACTTTGCAAGTTGGCTCTCANACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|100390873|gb|BY989356.1|BY989356
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|67719585|gb|BJ969844.1|BJ969844
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTANA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|162271003|gb|FC447408.1|FC447408
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|208357982|gb|DC943080.1|DC943080
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|100388397|gb|BY951999.1|BY951999
EST:     ACAATACTTTGCAAGTTGGCTCTCAAACCCATCA-GGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: ACAATACTTTGCAAGTTGGCTCTCAAACC-ATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|100409472|gb|BY992028.1|BY992028
EST:     ACAATACTTTGCAAGTTGGCTCTCANACCATNCA-GGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: ACAATACTTTGCAAGTTGGCTCTCAAACCAT-CAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|208389902|gb|DC937733.1|DC937733
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAA
EST: gi|100408961|gb|BY974303.1|BY974303
EST:     ACAATACTTTGCAAGTTGGCTCTCAAACCCATCAGGGTCT-CGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCG
genomic: ACAATACTTTGCAAGTTGGCTCTCAAACC-ATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCG
EST: gi|208389487|gb|DC942194.1|DC942194
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAA
EST: gi|67717293|gb|BJ967552.1|BJ967552
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTG
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTG
EST: gi|208389270|gb|DC933298.1|DC933298
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCC
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCC
EST: gi|67709719|gb|BJ965535.1|BJ965535
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTG
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTG
EST: gi|208367329|gb|DC939859.1|DC939859
EST:     GACAATACTTTGCAAGTTGGNTCTCANACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGNTGGAGCCGACTTCGTGGTAAA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|67710128|gb|BJ965863.1|BJ965863
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATC
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATC
EST: gi|208366788|gb|DC940102.1|DC940102
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|100435098|gb|BY979071.1|BY979071
EST:     CAATACTTTGCAAAGT-GGCTCTCAAACCCATCA-GGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: CAATACTTTGCAA-GTTGGCTCTCAAACC-ATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|18348603|gb|BJ180652.1|BJ180652
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAA
EST: gi|67717669|gb|BJ967928.1|BJ967928
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|208387109|gb|DC941281.1|DC941281
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|100388056|gb|BY988529.1|BY988529
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGC
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGC
EST: gi|100410315|gb|BY992045.1|BY992045
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|67573346|gb|BJ946170.1|BJ946170
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|208375286|gb|DC940439.1|DC940439
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCCGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
EST: gi|67717837|gb|BJ968096.1|BJ968096
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGA
EST: gi|100424875|gb|BY976860.1|BY976860
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAA
EST: gi|208394373|gb|DC942533.1|DC942533
EST:     GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAG                         GGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA
genomic: GACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGA

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), 35 (downstream exon)
Score: 58

AGTACGACTCTACCCATGGGCTCCTCAAGTCCGAGGTGAATGCTGTAGACGACAATACTTTGCAAGTTGGCTCTCAAACCATCAAGGTCTTCGGATGCAGgtaaacctat ... ctgtccgcagGGACCCTGCTGAAATCCCATGGGGATCAGTTGGAGCCGACTTCGTGGTAGAGTCTACCGGTGTCTTCACTGCCGTTGACAAAGCCTCTGCTCACTTCAAG




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