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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAGGTCTCAAGGTTCAAGTGGTTGATACCACTGGAGCCGGTGATGCATTTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaaaatatgtattttcgtactagttatgctggttatctttgttctgcatctgaattcttttggttttctgttgtactatatgttgatcaggatgataactttaagggtttaactgtgaacatctatgtactactgtaacttgcacag

Basic information

species Physcomitrella patens
transcript PP1S127_105V6.1
intron # 6
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|67720181|gb|BJ970440.1|BJ970440
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162255602|gb|FC431600.1|FC431600
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162159123|gb|FC334294.1|FC334294
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTCGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|19783707|gb|BQ040057.1|BQ040057
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCTTTAGC
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGC-GGAGC
EST: gi|18335485|gb|BJ167505.1|BJ167505
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|18340869|gb|BJ172900.1|BJ172900
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|18339396|gb|BJ171423.1|BJ171423
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|208396708|gb|DC920388.1|DC920388
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162193816|gb|FC371291.1|FC371291
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTCGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162255603|gb|FC431601.1|FC431601
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162159124|gb|FC334295.1|FC334295
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTCGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|67724820|gb|BJ975079.1|BJ975079
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162197072|gb|FC372450.1|FC372450
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTCGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162263645|gb|FC438881.1|FC438881
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162197071|gb|FC372449.1|FC372449
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTCGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|208386135|gb|DC949046.1|DC949046
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162280370|gb|FC456075.1|FC456075
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162263646|gb|FC438882.1|FC438882
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162193789|gb|FC371290.1|FC371290
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTCGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|37830259|gb|BJ588271.1|BJ588271
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
EST: gi|162280371|gb|FC456076.1|FC456076
EST:     TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAG                         GATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT
genomic: TTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCT

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), 35 (downstream exon)
Score: 9

GGGAGGTCTCAAGGTTCAAGTGGTTGATACCACTGGAGCCGGTGATGCATTTTGTGCTGGTCTTCTGAGCCAGCTTGCGAAGTCTCCATCCATTGTTGAGgtaagaagaa ... acttgcacagGATGAAGAGAAGCTGCGTGAGGCTCTCACATTTGCAAATGCTTGCGGAGCTATCACGACGACTGAAAGAGGAGCCATTCCATCGCTTCCTGATAATGAGA




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