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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACGTGACAAACCGCATTAATTTGACCCCTGTTGCTCTCATGGAGGGTATGGCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctcacatttgcatttgttctgatatgtgaatgaaattttaacacaagcggcgtccatggagtacccagttacttgatttctgttctgtaacgacttaccgatgttttatgtctgatttcgtgagatccgggctttactgtttcag

Basic information

species Physcomitrella patens
transcript PP1S13_127V6.2
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|37848097|gb|BJ606105.1|BJ606105
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACNTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|37844512|gb|BJ602520.1|BJ602520
EST:     GCAATGGCAAAANCTGCTTTCGGAAATGAGCCGACCAAACTTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCANCCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|162220508|gb|FC396045.1|FC396045
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|162220509|gb|FC396046.1|FC396046
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|162226395|gb|FC403311.1|FC403311
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|37843971|gb|BJ601979.1|BJ601979
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|37827821|gb|BJ585833.1|BJ585833
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|37830683|gb|BJ588695.1|BJ588695
EST:     AAAACTGCTTTCGGAAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: AAAACTGCTTTCGG-AAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|37826872|gb|BJ584884.1|BJ584884
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|208393557|gb|DC949719.1|DC949719
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCAGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|162256496|gb|FC432527.1|FC432527
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|37825350|gb|BJ583416.1|BJ583416
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|67697363|gb|BJ957596.1|BJ957596
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|208392896|gb|DC928582.1|DC928582
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
EST: gi|37852204|gb|BJ610212.1|BJ610212
EST:     GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAG                         ATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA
genomic: GCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTA

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), 34 (downstream exon)
Score: 26

ACGTGACAAACCGCATTAATTTGACCCCTGTTGCTCTCATGGAGGGTATGGCAATGGCAAAAACTGCTTTCGGAAATGAGCCGACCAAACCTGATTACAGgtactgcctc ... actgtttcagATTTATTGCTTCAGCGGTGTTCACTCAACCTCCTATCGGAACAGTCGGTTACACTGAAGAACAG




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