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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTGCGTCTGGGGAGGTAGATGCTGTTGTGAATCCATATACAGTCCCTTGCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaattggatgactttctcgaaacagtcggttgagctatttaattagatcatgatctggtagaggctgcttagttttgacccagttgaatgtcccatcttttctctcaattgaatgattgtttggaaagtactatacattcttctcgaagttcacgaatctgagtacatctcgatcgcag

Basic information

species Physcomitrella patens
transcript PP1S77_25V6.2
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|162186891|gb|FC363135.1|FC363135
EST:     GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCT                         ACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
genomic: GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaa ... tcgatcgcagACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
EST: gi|162159380|gb|FC335168.1|FC335168
EST:     GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCT                         ACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGT
genomic: GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaa ... tcgatcgcagACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGT
EST: gi|100417032|gb|BY993210.1|BY993210
EST:     GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCT                         ACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
genomic: GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaa ... tcgatcgcagACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
EST: gi|162167138|gb|FC343614.1|FC343614
EST:     GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCT                         ACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
genomic: GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaa ... tcgatcgcagACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
EST: gi|162155572|gb|FC331016.1|FC331016
EST:     GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCT                         ACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGT
genomic: GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaa ... tcgatcgcagACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGT
EST: gi|37831487|gb|BJ589499.1|BJ589499
EST:     GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCT                         ACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
genomic: GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaa ... tcgatcgcagACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
EST: gi|162154472|gb|FC330474.1|FC330474
EST:     GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCT                         ACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT
genomic: GCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaa ... tcgatcgcagACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATT

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: 64

AGTTGCGTCTGGGGAGGTAGATGCTGTTGTGAATCCATATACAGTCCCTTGCCGTGAAGGACCGTCTGCCGACAAAGGCCCCGCTGTCAACGAAATTGCTgtgagttaaa ... tcgatcgcagACGCAACGACCAATGGTGCTACAGCGGAGGCTCTCACGTCGCTTCTCGATTAAAGCCCCCAGTGATCGTGATGACCGGGGCTGGACCCCTCTACATGTTG




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