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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCGTGTGAGGTTTTAGTTCAACGCTTGCAGCCTGTGGTAGAGCAACTCGCCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtattaaaaaactaccaacaccacatttttctgtttgatttcagaaatttgtcagttgaggtcccatgcctttgtgacccaaatgcacgtgaagtatctagcatgcgaacattgacaacaattcatgaatgtcaatagtaacagtaccaaagttttcgcaaattgtttcactattcttgcattgtatgtgcag

Basic information

species Physcomitrella patens
transcript PP1S93_48V6.1
intron # 8
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|162231673|gb|FC407642.1|FC407642
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCNAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|162250870|gb|FC426914.1|FC426914
EST:     TGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: TGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|162157103|gb|FC333673.1|FC333673
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|162186249|gb|FC362181.1|FC362181
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|162158928|gb|FC334801.1|FC334801
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|162191113|gb|FC367375.1|FC367375
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|162193300|gb|FC370918.1|FC370918
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|162199013|gb|FC375783.1|FC375783
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTG
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTG
EST: gi|162166947|gb|FC343332.1|FC343332
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|162152767|gb|FC329773.1|FC329773
EST:     CTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
EST: gi|100430081|gb|BY978237.1|BY978237
EST:     CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATG                         GCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC
genomic: CCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCC

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: 20

AGCGTGTGAGGTTTTAGTTCAACGCTTGCAGCCTGTGGTAGAGCAACTCGCCAAGGATAAAACTGATGGGGAAGTTTCGTGGGAGTACCTTTGTACGATGgtatgtatta ... gtatgtgcagGCCAAATTGATGCAAATTGATTTGCAGTCTCATGAGCGTTGGGTTTCTCCCATGAAACCGTACGTTTTATTTGGAGCCGGAGCAAGTGAG




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