Skip to another splice site:
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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCAAAGCGCGCGGAATTGAACCCTCATGCGACATCAAGCTTGGCTGGGCAGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcattacgtcctttctcctgcaccttgcttgaaacaagtttccgagtatcatggtgatgccaattagtccgagaaggtggtgaatcatattcctgcggggagatggtgatgaaatgtgatccttgtgcag

Basic information

species Physcomitrella patens
transcript PP1S97_287V6.1
intron # 3
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|162265303|gb|FC440421.1|FC440421
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|162220059|gb|FC397030.1|FC397030
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|67723788|gb|BJ974047.1|BJ974047
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|37846551|gb|BJ604559.1|BJ604559
EST:     TTGACGGTCGCAAGGGGCTTCAATCCACCACTCCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: TTGACGGTCGCAA-GCGCTTCAATCCACCACT-CCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|18341790|gb|BJ173825.1|BJ173825
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|37846352|gb|BJ604360.1|BJ604360
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|162254023|gb|FC429339.1|FC429339
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|22132872|gb|BQ827412.1|BQ827412
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|22492783|gb|BU052706.1|BU052706
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|162280433|gb|FC456346.1|FC456346
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|162155582|gb|FC331533.1|FC331533
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
EST: gi|37851957|gb|BJ609965.1|BJ609965
EST:     AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTG                         GGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG
genomic: AGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGG

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: 23 (upstream exon), 30 (downstream exon)
Score: 4

ACCAAAGCGCGCGGAATTGAACCCTCATGCGACATCAAGCTTGGCTGGGCAGTTGACGGTCGCAAGCGCTTCAATCCACCACTCCCTACAAACTATTTTGgtaactcatt ... ccttgtgcagGGAATGTGAACTTCTACGGATGTGTTAAGTCGAACGCAAGGGAGGTGGTGGCCAAGCCTCTCGACTGTGCAGCCACGAGCATCCGGTCTGCTACAAACCG




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