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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTTCGTTCTGTAACATCTCAACAGAGTGTGTTTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATGgtgagttcattttaatagataagactattgtttgtatggcagaggatgccagactataatcgatttataattctaaaccgagtctgctcggttcctcttc...

Basic information

species Physcomitrella patens
transcript PP1S41_163V6.3
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|162196614|gb|FC374904.1|FC374904
EST:     TTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATG                         TTATCTGCACCCCCGGGTTACAGCGAGCATCACACTGGTTATGCAATCGAT
genomic: TTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATGgtgagttcat ... tgactgacagTTATCTGCACCCCCGGGTTACAGCGAGCATCACACTGGTTATGCAATCGAT
EST: gi|208351989|gb|DC925798.1|DC925798
EST:     TTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATG                         TTATCTGCACCCCCGGGTTACAGCGAGCATCACACTGGTTATGCAATCGAT
genomic: TTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATGgtgagttcat ... tgactgacagTTATCTGCACCCCCGGGTTACAGCGAGCATCACACTGGTTATGCAATCGAT
EST: gi|100355722|gb|BY965113.1|BY965113
EST:     TTTTTGACGGGGAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATG                         TTATCTGCACCCCCGG-TTACAGCGAGCATCACACTGGTTATGCAATCGAT
genomic: TTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATGgtgagttcat ... tgactgacagTTATCTGCACCCCCGGGTTACAGCGAGCATCACACTGGTTATGCAATCGAT
EST: gi|37852321|gb|BJ610329.1|BJ610329
EST:     TTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATG                         TTATCTGCACCCCCGGGTTACAGCGAGCATCACACTGGTTATGCAATCGAT
genomic: TTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATGgtgagttcat ... tgactgacagTTATCTGCACCCCCGGGTTACAGCGAGCATCACACTGGTTATGCAATCGAT

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: 34 (upstream exon), 35 (downstream exon)
Score: 7

GTTTCGTTCTGTAACATCTCAACAGAGTGTGTTTTTTGACGGGAAGGCAGAGCGTATGCAACGTGCGGCTGAGCGTGCTATGgtgagttcat ... tgactgacagTTATCTGCACCCCCGGGTTACAGCGAGCATCACACTGGTTATGCAATCGATATTGGTGATGCGACTGATCCTGCTACTTATTTCGAACCAG




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