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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCTACCTCGCAATCTCCGCCCAAGGGTTGTTCCCAATGGATCGCTGCTCTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAGgtgggtgatggtgggtataacttagttacatagtttgagtctggctgcacggaattcaggtttgttagttagtaccccctgtccacagagagcaagcact...

Basic information

species Physcomitrella patens
transcript PP1S309_8V6.1
intron # 1
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|208392632|gb|DC933990.1|DC933990
EST:     CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAG                         GTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
genomic: CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAGgtgggtgatg ... tgaattttagGTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
EST: gi|208387836|gb|DC941405.1|DC941405
EST:     CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAG                         GTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
genomic: CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAGgtgggtgatg ... tgaattttagGTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
EST: gi|100395116|gb|BY953607.1|BY953607
EST:     CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAG                         GTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
genomic: CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAGgtgggtgatg ... tgaattttagGTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
EST: gi|100439779|gb|BY962103.1|BY962103
EST:     CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAG                         GTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
genomic: CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAGgtgggtgatg ... tgaattttagGTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
EST: gi|208372043|gb|DC940225.1|DC940225
EST:     CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAG                         GTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG
genomic: CTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAGgtgggtgatg ... tgaattttagGTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAG

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), 34 (downstream exon)
Score: 4

CCTCTACCTCGCAATCTCCGCCCAAGGGTTGTTCCCAATGGATCGCTGCTCTCAGACGCCTTCAGTGCCGACTCGGAAGCTCGGGCGCCAAGGCCTCAAGgtgggtgatg ... tgaattttagGTTTCAGCGTTGGGGCTGGGATGCATGGGCTTTTCCACCTGGTACGGGAAGCCTGTGGAGGAGAAGGAAGCCATCGCTGTTATTCATCACGCTTTTAACA




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