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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcaagcaattctgcaagatccttgaatggctttagaagttttgaagctagcgaatctttacattttcatgagttcaaattcctagatatggcatgctggtgcatatttatctggattgaatgtattgatcgtttaatgtcacaatttattgagcttataattttctgattgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATAGCGGATCTTATCGCCGTGAGAACTCGAACTGGTGTGCATTGTCGGAGTA

Basic information

species Physcomitrella patens
transcript PP1S100_191V6.1
intron # 13
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|162169840|gb|FC346196.1|FC346196
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162166455|gb|FC342437.1|FC342437
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162167712|gb|FC344026.1|FC344026
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162245205|gb|FC422134.1|FC422134
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162184867|gb|FC361377.1|FC361377
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162171740|gb|FC348201.1|FC348201
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162254705|gb|FC430994.1|FC430994
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162169841|gb|FC346197.1|FC346197
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162150065|gb|FC326596.1|FC326596
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|18338916|gb|BJ170942.1|BJ170942
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162171141|gb|FC347755.1|FC347755
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162164446|gb|FC341572.1|FC341572
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162183699|gb|FC359095.1|FC359095
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162164679|gb|FC340726.1|FC340726
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162171741|gb|FC348202.1|FC348202
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162167713|gb|FC344027.1|FC344027
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
EST: gi|162191939|gb|FC366944.1|FC366944
EST:     GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACT                         CCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA
genomic: GCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATA

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: 15 (upstream exon), 21 (downstream exon)
Score: 2

GGTCATTGGCCATTCCCTCGCGACAAATTGATGATGGGATATGCATACATTTTAACACACCCTGGAACTgtaagtgcaa ... tgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATAGCGGATCTTATCGCCGTGAGAACTCGAACTGGTGTGCATTGTCGGAGTA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatcgtttaatgtcacaatttattgagcttataattttctgattgctttgcagCCTGTGATTTTCCATGACCACTTTTATGACTTCGGTCTGCATGATCAAATAGCGGATCTTATCGCCGTGAGAACTCGAACTGGTGTGCATTGTCGGAGTA
                                      ttctgat  putative branch site (score: 2)
                                            ttgcttt  CT-rich tract
                  aatttattgagcttat  TA-rich tract