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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGGTGTCTCAGTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAGgtaaacaccgttttggccatggacagttttaaatgcgaaattttagtgacttcagtattgctttccaatttcagtcgaacaccctattttcaccttgtgt...

Basic information

species Physcomitrella patens
transcript PP1S47_222V6.1
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|162194987|gb|FC369052.1|FC369052
EST:     GTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAG                         GCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTG
genomic: GTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAGgtaaacaccg ... tggtgtgtagGCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTG
EST: gi|162220681|gb|FC396893.1|FC396893
EST:     GTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAG                         GCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTG
genomic: GTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAGgtaaacaccg ... tggtgtgtagGCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTG
EST: gi|208369514|gb|DC936304.1|DC936304
EST:     GTTAGCTCCGTTTCTTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAG                         GCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTG
genomic: GTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAGgtaaacaccg ... tggtgtgtagGCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTG
EST: gi|162194988|gb|FC369053.1|FC369053
EST:     GTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAG                         GCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTG
genomic: GTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAGgtaaacaccg ... tggtgtgtagGCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTG

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: 15 (upstream exon), 34 (downstream exon)
Score: 5

ACTGGTGTCTCAGTTAGCTCCGTTTCCTGGCATGCAGCATTTGGATGTGGCTGGGGGTACAGgtaaacaccg ... tggtgtgtagGCGATGTTGCGTTCCGTGTTGTTAATGCAATTCAGAAGGCCGAGCAACGTGTTCCTGGCAATACACTAGGTAGTGTTGATGAAGAGGATCGGACAAAAGT




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