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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAAGCAAAACGTTGCGCTTGCATTGTTTTCTATTATCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctcaccgtgtcactaaggataatataccaagagtctctcaacactttatgataataataataataattattattattattatttttaatctgaacctgggcatctgatattgattgtttactgtgtgggtgcag

Basic information

species Physcomitrella patens
transcript PP1S55_292V6.1
intron # 14
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|18340863|gb|BJ172894.1|BJ172894
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|37823684|gb|BJ581750.1|BJ581750
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|18338814|gb|BJ170839.1|BJ170839
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|18339023|gb|BJ171049.1|BJ171049
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|37826601|gb|BJ584613.1|BJ584613
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|37821290|gb|BJ579356.1|BJ579356
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|37828784|gb|BJ586796.1|BJ586796
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|162196305|gb|FC373529.1|FC373529
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|37833004|gb|BJ591016.1|BJ591016
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
EST: gi|37828728|gb|BJ586740.1|BJ586740
EST:     TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCG                         GTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA
genomic: TCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGA

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: 14

GTCAAGCAAAACGTTGCGCTTGCATTGTTTTCTATTATCCTCGCTGGTCTGCCCTCAGTACTGGGAGTTCTCCCTCTTTGGCTTGCGgtaggccctc ... gtgggtgcagGTACTTATGCATGAAGGCGGTACTTTACTTGTATGCGTGAATTCTGTGAGAGCATTCAGGAATCCTTCCTACAAATTGGGACGCTGGAAACTGCTGCAAC




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