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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagtatgatattatgtaccgagtaaggctcgtacattagagcattgaatgccttttaagtgttccaacataaacctcggggtatggaattgcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGACCCAGTTAACGACAGGCATCATGGCCCTTCAG

Basic information

species Physcomitrella patens
transcript PP1S37_33V6.2
intron # 7
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|162194038|gb|FC370213.1|FC370213
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|162202113|gb|FC378034.1|FC378034
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|162165709|gb|FC340890.1|FC340890
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|67574071|gb|BJ946895.1|BJ946895
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|208373915|gb|DC940426.1|DC940426
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|208398177|gb|DC908406.1|DC908406
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|100427449|gb|BY977503.1|BY977503
EST:     GCAAGTCAATGCACTGAGTGGAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGGGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|162176173|gb|FC351915.1|FC351915
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|162233299|gb|FC409849.1|FC409849
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|208362586|gb|DC939510.1|DC939510
EST:     GCAAGTCAATGCACTAAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|162152562|gb|FC328840.1|FC328840
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|100352729|gb|BY945419.1|BY945419
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|162173170|gb|FC349237.1|FC349237
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|19783472|gb|BQ040017.1|BQ040017
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
EST: gi|162258522|gb|FC434737.1|FC434737
EST:     GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAG                         GTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA
genomic: GCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGA

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), 32 (downstream exon)
Score: 10

GTTCCAACCAAAGAGCAAGTCAATGCACTGAGTGAAGATTTGCGATCTCGCGCAAAAATCCCAGgtatagggta ... gcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGACCCAGTTAACGACAGGCATCATGGCCCTTCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgccttttaagtgttccaacataaacctcggggtatggaattgcttcctcagGTCACGTGTTTGATGTCATCAACGCACTCCCAAAGACTGCACATCCCATGACCCAGTTAACGACAGGCATCATGGCCCTTCAG
                                           ttgcttcctc  CT-rich tract
       ttttaagt  TA-rich tract