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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACTCAGATGATTTGAAGCGGCTATGTGATGATCCTGTTGTACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggttttaattatttccacagtagtgtacagcttaagcatagataagtagcgattgtaacagagtgattcaatttctctatgttcctttgtttcttt...

Basic information

species Physcomitrella patens
transcript PP1S408_23V6.1
intron # 23
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|162231516|gb|FC407966.1|FC407966
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
EST: gi|67579410|gb|BJ951531.1|BJ951531
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
EST: gi|67578962|gb|BJ951113.1|BJ951113
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
EST: gi|162171191|gb|FC346362.1|FC346362
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
EST: gi|162269122|gb|FC444990.1|FC444990
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
EST: gi|19778765|gb|BQ039356.1|BQ039356
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
EST: gi|37848450|gb|BJ606458.1|BJ606458
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
EST: gi|162205653|gb|FC381881.1|FC381881
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
EST: gi|162163688|gb|FC340287.1|FC340287
EST:     TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAG                         TTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC
genomic: TACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTC

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: 29 (upstream exon), 30 (downstream exon)
Score: 9

CACTCAGATGATTTGAAGCGGCTATGTGATGATCCTGTTGTACGAGTGGCTGTGCTTGCGGATATGAATACTGTCGGTCGCGAAGCACAGgtttggtttt ... ttctttgcagTTGCGAGGTTTTGAGTTTGCCAAAGCTGTGACGTTGATTCCTGAACCATTCTCAATAGAAAATGGATTGCTTACACCCACGCTCAAG




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