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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGCAAACGCAAGCTATGGGATTCATGAAACAGGAACAGCCTGAGCGTTATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttgatgtgttgatctgattcgaagtgtctggtgaacttacttgttctgctttgtgacatggtctatgttgtctgtaagaagttgtgtttttat...

Basic information

species Physcomitrella patens
transcript PP1S31_68V6.1
intron # 3
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|208378663|gb|DC903694.1|DC903694
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|67717592|gb|BJ967851.1|BJ967851
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|208379508|gb|DC911119.1|DC911119
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|162182459|gb|FC358058.1|FC358058
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|18352925|gb|BJ184980.1|BJ184980
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|67573598|gb|BJ946422.1|BJ946422
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|18356245|gb|BJ188304.1|BJ188304
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|100450837|gb|CJ974464.1|CJ974464
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCANGAATCATCCAAAGAGAAAAGACGTGCACAGATNGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|100431243|gb|BY960099.1|BY960099
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GGCT-ATCAAGAATCATCCAAAGAGAAAAGACGTG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagG-CTTATCAAGAATCATCCAAAGAGAAAAGACGTG
EST: gi|208377120|gb|DC940820.1|DC940820
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
EST: gi|18350111|gb|BJ182162.1|BJ182162
EST:     ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAG                         GCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG
genomic: ATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG

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: 20 (upstream exon), 16 (downstream exon)
Score: 2

GAGGCAAACGCAAGCTATGGGATTCATGAAACAGGAACAGCCTGAGCGTTATCTTAAGCTTGAGCACCTCCTTGTTCGAACCTACTTCGACCCCCGTGAGgtactgtttg ... tttgtgacagGCTTATCAAGAATCATCCAAAGAGAAAAGACGTGCACAGATTGCTCAAG




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