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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGAGCAGAGGAAGGTGTTGAAGGCTGTCAATGGCGTCCGCGCCATGGCCTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgacaatggcgcagcgactaagtagagcatagcttttttaggaaccgcttgctgtaccacatgctcatttacttcaatttgtattttgtag

Basic information

species Physcomitrella patens
transcript PP1S29_256V6.1
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|100389328|gb|BY971078.1|BY971078
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|162171618|gb|FC347559.1|FC347559
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|19777824|gb|BQ039232.1|BQ039232
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|18361928|gb|BJ193995.1|BJ193995
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCCGGTGTGGCGGATGACCAAGGTTTTGGCTGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCC-GGTGTGGCGGATGACCAAGGTTTTGGCTGG
EST: gi|18345650|gb|BJ177693.1|BJ177693
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCNAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|67717450|gb|BJ967709.1|BJ967709
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|18351024|gb|BJ183075.1|BJ183075
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGATTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|67719586|gb|BJ969845.1|BJ969845
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|100368841|gb|BY984912.1|BY984912
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|67718262|gb|BJ968521.1|BJ968521
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGATTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|162176349|gb|FC353534.1|FC353534
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|18350765|gb|BJ182816.1|BJ182816
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|208359693|gb|DC930283.1|DC930283
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|162167232|gb|FC342797.1|FC342797
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|100386758|gb|BY970299.1|BY970299
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|162169525|gb|FC346089.1|FC346089
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|162169758|gb|FC345295.1|FC345295
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|100418707|gb|BY975701.1|BY975701
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|18326385|gb|BJ158384.1|BJ158384
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCG
EST: gi|18343485|gb|BJ175523.1|BJ175523
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGATTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|162181164|gb|FC357609.1|FC357609
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|67718833|gb|BJ969092.1|BJ969092
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|18361236|gb|BJ193301.1|BJ193301
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|18325596|gb|BJ157593.1|BJ157593
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|100384688|gb|BY950678.1|BY950678
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|100429370|gb|BY978077.1|BY978077
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|100403476|gb|BY991219.1|BY991219
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
EST: gi|162241271|gb|FC416902.1|FC416902
EST:     CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAG                         GGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG
genomic: CTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGG

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), 35 (downstream exon)
Score: 13

GAGGAGCAGAGGAAGGTGTTGAAGGCTGTCAATGGCGTCCGCGCCATGGCCTCTGCCAACGGTGTCCCAGCCCCTTCTGGCCTTCCCATTGATCTTCGAGgtacctgaca ... tattttgtagGGAAAAGAGCGTTTATTGCCGGTGTGGCGGATGACCAAGGTTTTGGCTGGGCCATTGCCAAAGCTCTGGCAGCAGCTGGAGCTGAAATTCTTGTCGGAAC




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