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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGCTTCGTTAGCCGGAGAAGGGAATTGCGAAGCTGATTGACGTCGCTGCATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtatgtatcagtgcaggttgtgtggcgggtcccgttgcctggtgatttctccgcgacgaatttggtgttggtaatggtccgtctggtgcagttt...

Basic information

species Physcomitrella patens
transcript PP1S9_292V6.1
intron # 1
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|162275756|gb|FC451927.1|FC451927
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|67702147|gb|BJ962380.1|BJ962380
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18359858|gb|BJ191919.1|BJ191919
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|208381062|gb|DC903008.1|DC903008
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|37853259|gb|BJ611267.1|BJ611267
EST:     CCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: CCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|208348031|gb|DC905354.1|DC905354
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18329723|gb|BJ161729.1|BJ161729
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|162169560|gb|FC346124.1|FC346124
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|208381346|gb|DC919236.1|DC919236
EST:     TCAATCACGCCCGCAA                         GGATTCCGGTGACCGTTNTTNGTGGCCATGGCGGAGCAGCGCGTGAAATTG
genomic: TCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGA-TCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTG
EST: gi|37844066|gb|BJ602074.1|BJ602074
EST:     TCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: TCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|162263247|gb|FC438548.1|FC438548
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18364626|gb|BJ196699.1|BJ196699
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18367276|gb|BJ199358.1|BJ199358
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18327116|gb|BJ159117.1|BJ159117
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|67720642|gb|BJ970901.1|BJ970901
EST:     CAATCACGCCCGCAG                         GGATCCCGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: CAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|162252545|gb|FC427861.1|FC427861
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCTGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18364707|gb|BJ196780.1|BJ196780
EST:     GCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: GCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18363994|gb|BJ196067.1|BJ196067
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|208395132|gb|DC923931.1|DC923931
EST:     ATCACGCCCGCA-                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18358585|gb|BJ190644.1|BJ190644
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|208352869|gb|DC910088.1|DC910088
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|162234413|gb|FC410159.1|FC410159
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCTGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|162275755|gb|FC451926.1|FC451926
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
EST: gi|18373568|gb|BJ205146.1|BJ205146
EST:     ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAG                         GGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA
genomic: ATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGA

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), 34 (downstream exon)
Score: 32

CCGCTTCGTTAGCCGGAGAAGGGAATTGCGAAGCTGATTGACGTCGCTGCATCGCATCCAGGGCCGTTCTGCTGTGCGGTATCCTCAATCACGCCCGCAGgtgagtgtat ... gtgtgtgcagGGATCCGGTGACCGTTGTTGGTGGCCATGGCGGAGCAGCGCGTGAAATTGAGGAGCTCGGATGACGAGATGTTCGAGGTGGACGAGGCGGTGGCGTTCGA




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