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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTTCTTTCAGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttctgtctttcttctcccctaccttttcagtttcattacgaggcgcctagttccttatggaatgtcagctaacgatagttttcctgtgctggttttcgcag

Basic information

species Physcomitrella patens
transcript PP1S243_27V6.5
intron # 7
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|18338225|gb|BJ170249.1|BJ170249
EST:     AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCC                         CTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
genomic: AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
EST: gi|162269879|gb|FC445396.1|FC445396
EST:     AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCC                         CTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
genomic: AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
EST: gi|162232053|gb|FC409127.1|FC409127
EST:     AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCC                         CTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
genomic: AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
EST: gi|18338246|gb|BJ170270.1|BJ170270
EST:     TTCCCCAGTTTANTTGATGATGCNC                         CTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTNTA
genomic: TTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
EST: gi|37835783|gb|BJ593795.1|BJ593795
EST:     AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCC                         CTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
genomic: AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
EST: gi|162232054|gb|FC409128.1|FC409128
EST:     AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCC                         CTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
genomic: AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
EST: gi|208351466|gb|DC926312.1|DC926312
EST:     AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCC                         CTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
genomic: AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
EST: gi|208382440|gb|DC927974.1|DC927974
EST:     AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCC                         CTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA
genomic: AGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTA

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: 32 (upstream exon), 35 (downstream exon)
Score: 3

GGCTTCTTTCAGCGTATTTCTGCTACCGCCAACACTTCCCCAGTTTATTTGATGATGCCCgtaagcttct ... gttttcgcagCTAGCATTCCTTATGCGCATAGGCCGCGCGCAGTGTCAAGCCAATCTTCTAGCCAAACAAATGCACGCCAGTCTCAGGCATTGGACCGAGATTCATCCAA




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