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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttctaacccgatgaaaaatttatttgcattttaaatcgttggtccctcgcactaggcattaacttaattgcatggccaaggttgtaccgatcctaagcaagatactggacttctatgtgttgcag

Basic information

species Physcomitrella patens
transcript PP1S215_28V6.1
intron # 9
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|162177268|gb|FC353425.1|FC353425
EST:     ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162153917|gb|FC329424.1|FC329424
EST:     TCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: TCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|37824967|gb|BJ583033.1|BJ583033
EST:     TGGACAAATCATG                         ATGGGTTTGATGGTCAGTCNTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: TGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162207831|gb|FC384124.1|FC384124
EST:     CCATTGCCCTGAGTCCTAATGTCACTGGACAAATCNTG                         ATGGGTNTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: CCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162178100|gb|FC354402.1|FC354402
EST:     GAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTNTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: GAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162178885|gb|FC354817.1|FC354817
EST:     ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162188180|gb|FC363946.1|FC363946
EST:     GCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: GCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162179082|gb|FC356483.1|FC356483
EST:     ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162186162|gb|FC361366.1|FC361366
EST:     ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162189252|gb|FC366748.1|FC366748
EST:     ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162253479|gb|FC430113.1|FC430113
EST:     GGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: GGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162269857|gb|FC445387.1|FC445387
EST:     ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162253480|gb|FC430114.1|FC430114
EST:     GTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: GTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162217937|gb|FC393933.1|FC393933
EST:     ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162151637|gb|FC327766.1|FC327766
EST:     ATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|162155909|gb|FC332458.1|FC332458
EST:     ATTGCCCTGAGTCCTAATGTCACTGGACAAATCATG                         ATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: ATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
EST: gi|208376494|gb|DC922525.1|DC922525
EST:     TGGACAAATCATG                         AT-GGNTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG
genomic: TGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTG

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), 34 (downstream exon)
Score: 46

ACTGTGGACGAGCTCTACAAGGTTTCCTCCATTGCCCTGAGTCCTAATGTCACTGGACAAATCATGgtatgtgttc ... tgtgttgcagATGGGTTTGATGGTCAGTCCTCCAAAACCAGGAGACATTTCGTATCCTCTGTACAAGGCAGAAAG




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