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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAACGTGGGGAAATCACAACAAGATTTTCCCGTTGGGAGGAGTGCCTCAGAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatttacaaagatctttacatggaattgtgcgatttttaactgaacaatctgagactagttaatgaagatggaaagtggtttctaatccacagc...

Basic information

species Physcomitrella patens
transcript PP1S132_95V6.1
intron # 7
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|208348540|gb|DC905819.1|DC905819
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|67718471|gb|BJ968730.1|BJ968730
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|100356048|gb|BY946170.1|BY946170
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|100380016|gb|BY968804.1|BY968804
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGG-AGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTC
EST: gi|100446010|gb|CJ970309.1|CJ970309
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|162196336|gb|FC375406.1|FC375406
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|100390341|gb|BY952749.1|BY952749
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|162267156|gb|FC443387.1|FC443387
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|100417339|gb|BY957283.1|BY957283
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|208344839|gb|DC912673.1|DC912673
EST:     NAAGCCATACAGATATTATGACCCTAANACGCGCGGATTGGACTACNAAN                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|208397779|gb|DC912002.1|DC912002
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGACATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|208352476|gb|DC910190.1|DC910190
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|208384190|gb|DC911298.1|DC911298
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
EST: gi|162263809|gb|FC438428.1|FC438428
EST:     GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAG                         GTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC
genomic: GAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCC

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), 31 (downstream exon)
Score: 14

CCAACGTGGGGAAATCACAACAAGATTTTCCCGTTGGGAGGAGTGCCTCAGAAGCCATACAGATATTATGACCCTAAGACGCGCGGATTGGACTACGAAGgtaacttatt ... atgctggcagGTATGTTGGAGGACTTGAAGGCAGCCCCTGATGGCGCAGTCATTTTGCTCCATGCGTGTGCACACAATCCCACTGGTGTTGACCCGACTGAAGAGCAGTG




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