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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCAAGCAGCTCCCTTTCTGGCAGATGGTGAGCCGTCGATCGTGGTGGCCAAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttgatgtttcgtttcttcatgcagttgcgggatctcactttcatgagctactcttcacgtttttgtttcgaattcgtctcgttagtctttgta...

Basic information

species Physcomitrella patens
transcript PP1S55_265V6.1
intron # 2
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|100360008|gb|BY965982.1|BY965982
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
EST: gi|18369409|gb|BJ201496.1|BJ201496
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
EST: gi|18328840|gb|BJ160846.1|BJ160846
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
EST: gi|162238481|gb|FC417388.1|FC417388
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
EST: gi|162277436|gb|FC452963.1|FC452963
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
EST: gi|208350392|gb|DC906094.1|DC906094
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
EST: gi|18343946|gb|BJ175985.1|BJ175985
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
EST: gi|18349664|gb|BJ181714.1|BJ181714
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
EST: gi|18374049|gb|BJ205627.1|BJ205627
EST:     AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAG                         TTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA
genomic: AAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGA

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), 17 (downstream exon)
Score: 3

ATCAAGCAGCTCCCTTTCTGGCAGATGGTGAGCCGTCGATCGTGGTGGCCAAGCTTAACGCTGACAAATACCGGACCATGGCTGAAAAATACGATATAAGgtgcgttttg ... gtgtgtccagTTTCTACCCGACGCTGAAGTTTTTCGCCAACGGATATCCTACAGATTACGACGGTCCCCACAGTGCCAATGCCTTGGTCTCACATGTCAGGCGTTTAACA




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