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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCCGATGAATATCGTATTGGAGCAAGAAAAACGATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAGgtttactaattttcctgctcgcgagtgatgcattctagagtgctgttctgtttttgaagtagataatattcaatgggcttgagtatacatatttaaaaaa...

Basic information

species Physcomitrella patens
transcript PP1S332_23V6.1
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|162214828|gb|FC390963.1|FC390963
EST:     GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAG                         TCATGCAGTTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGA
genomic: GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAGgtttactaat ... agtcatgcagT--T-CAGTT--G--G-AAAGACGAGATGTACAAGCAAGAAGTCTGTGGGA
EST: gi|100360347|gb|BY966126.1|BY966126
EST:     GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAG                         TTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGATTCCATTA
genomic: GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAGgtttactaat ... agtcatgcagTTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGATTCCATTA
EST: gi|162219572|gb|FC395568.1|FC395568
EST:     GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAG                         TTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGATTCCATTA
genomic: GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAGgtttactaat ... agtcatgcagTTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGATTCCATTA
EST: gi|18350788|gb|BJ182839.1|BJ182839
EST:     GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAG                         TTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGAT
genomic: GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAGgtttactaat ... agtcatgcagTTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGAT
EST: gi|208381568|gb|DC923154.1|DC923154
EST:     AAATGACTCTCCTATGTCAG                         TTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGATTCCATTA
genomic: AAATGACTCTCCTATGTCAGgtttactaat ... agtcatgcagTTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGATTCCATTA
EST: gi|18359944|gb|BJ192005.1|BJ192005
EST:     GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAG                         TCATGCAGTTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGA
genomic: GATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAGgtttactaat ... agtcatgcagT--T-CAGTT--G--G-AAAGACGAGATGTACAAGCAAGAAGTCTGTGGGA

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), 22 (downstream exon)
Score: 23

GTCCGATGAATATCGTATTGGAGCAAGAAAAACGATTCTTACAGCGAGTTATAAATTTCCCAGAAATGACTCTCCTATGTCAGgtttactaat ... agtcatgcagTTCAGTTGGAAAGACGAGATGTACAAGCAAGAAGTCTGTGGGATTCCATTAGATCAGG




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