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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGAATCAAGACGTGCCCAGCAATTAGCCCTCGCGATGAACTTTTTTGGTTCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatacacgttcaatctggacttagttctgatacagttgtacttcatgcgcttggtgtcgacaacactcctagatgtttttttttttttttttttt...

Basic information

species Physcomitrella patens
transcript PP1S99_220V6.1
intron # 11
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|162163777|gb|FC340337.1|FC340337
EST:     TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAG                         AATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
genomic: TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
EST: gi|162196059|gb|FC372204.1|FC372204
EST:     TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAG                         AATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
genomic: TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
EST: gi|37839128|gb|BJ597136.1|BJ597136
EST:     TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAG                         AATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
genomic: TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
EST: gi|162154186|gb|FC330317.1|FC330317
EST:     TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAG                         AATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
genomic: TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
EST: gi|162266580|gb|FC442798.1|FC442798
EST:     TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAG                         AATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
genomic: TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
EST: gi|162239476|gb|FC414041.1|FC414041
EST:     TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAG                         AATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
genomic: TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
EST: gi|162162418|gb|FC339175.1|FC339175
EST:     TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAG                         AATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
genomic: TCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
EST: gi|37852138|gb|BJ610146.1|BJ610146
EST:     TCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAG                         AATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG
genomic: TCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG

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: 9

AGGAATCAAGACGTGCCCAGCAATTAGCCCTCGCGATGAACTTTTTTGGTTCAGGTCTCCACGACTGCTTCTTTTCTTACTTCACTTCATTCTTTTCCAGgtatacatac ... tactatccagAATGCTTTTGAACTGGCCTTCTTCTTCTGGACTATG




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