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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgaaagcttatagatcgaagctctgtgcaataggaaattagtatagattatctccttgatgtgctgatccactaatatacatccgttgctatactgcagTACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGGGGGTTAATTGTTGGATGATGACCTCTTCTTGACAGCTAGTCTCTCATGC

Basic information

species Physcomitrella patens
transcript PP1S237_29V6.1
intron # 14
splice site 3'
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|67699488|gb|BJ959721.1|BJ959721
EST:     GGTAGTGATTCANGGAAGCAATACATGCACCGTGCAACCCTG                         TACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCG
genomic: GGTAGTGATTCATGGAAGCAATACATGCACCGTGCAA-CCTGgtactcatac ... tatactgcagTACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCG
EST: gi|162163442|gb|FC339976.1|FC339976
EST:     AGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTG                         TACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGG
genomic: AGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTGgtactcatac ... tatactgcagTACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGG
EST: gi|162180806|gb|FC358307.1|FC358307
EST:     AGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTG                         TACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGG
genomic: AGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTGgtactcatac ... tatactgcagTACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGG
EST: gi|162153738|gb|FC329141.1|FC329141
EST:     AGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTG                         TACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGG
genomic: AGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTGgtactcatac ... tatactgcagTACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGG
EST: gi|162268955|gb|FC445759.1|FC445759
EST:     AGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTG                         TACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGG
genomic: AGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTGgtactcatac ... tatactgcagTACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGG

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), 35 (downstream exon)
Score: 11

GAGCGGAGATTGGGGGAGCATTCGGTGGAGAGAAGGCAACAGGGGGCGGAAGGGAAGCGGGTAGTGATTCATGGAAGCAATACATGCACCGTGCAACCTGgtactcatac ... tatactgcagTACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGGGGGTTAATTGTTGGATGATGACCTCTTCTTGACAGCTAGTCTCTCATGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agattatctccttgatgtgctgatccactaatatacatccgttgctatactgcagTACTATCAATTACGGCAACGATCTACCGTTGGCACAGGGTATAAATTTCGGGGGTTAATTGTTGGATGATGACCTCTTCTTGACAGCTAGTCTCTCATGC
                         cactaat  putative branch site (score: 11)
                            taatatacat  TA-rich tract