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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACGTCTTCAGTTTTGGAGTGTTGGCCTTGGAGGTTGTGAGTGGGAGGAGAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttccacttcatgtaaacatacgctattatttcttttcctgtagttatgtatttgtttttgtgtatgctagtatcttaaatttatatttacatcaacctctctttcatatgcatcttcacattttaaaaccttttggtgaaaattcttttggaaaattattgcag

Basic information

species Physcomitrella patens
transcript PP1S76_92V6.1
intron # 4
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|162199131|gb|FC375823.1|FC375823
EST:     GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGG                         GCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
genomic: GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttcc ... attattgcagGCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
EST: gi|37844661|gb|BJ602669.1|BJ602669
EST:     GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGG                         GCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
genomic: GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttcc ... attattgcagGCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
EST: gi|162195919|gb|FC375652.1|FC375652
EST:     GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGG                         GCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
genomic: GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttcc ... attattgcagGCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
EST: gi|37851564|gb|BJ609572.1|BJ609572
EST:     GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGG                         GCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
genomic: GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttcc ... attattgcagGCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
EST: gi|37836695|gb|BJ594703.1|BJ594703
EST:     GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGG                         GCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
genomic: GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttcc ... attattgcagGCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
EST: gi|162174620|gb|FC350275.1|FC350275
EST:     GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGG                         GCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
genomic: GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttcc ... attattgcagGCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
EST: gi|37848350|gb|BJ606358.1|BJ606358
EST:     GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGG                         GCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT
genomic: GAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttcc ... attattgcagGCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGT

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: 13 (upstream exon), 26 (downstream exon)
Score: 4

AGACGTCTTCAGTTTTGGAGTGTTGGCCTTGGAGGTTGTGAGTGGGAGGAGAAATATCAATTTTGATGTGCCTTTGGAAAAAACATACCTCAGTGAATGGgtacgtttcc ... attattgcagGCATGGAAACTAAATGAAGCGGGTAGTCTCCTAGACCTAGTTGATCCAAGTCTGTCGTTACACGTTGATGAAGAGGCTGTGGTACTACGGGTGATAAATG




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