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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGCTTTCTCCAATGACAAGGGAAGCATAGTTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttccttcacgtcacaaaatatggtgctttcctttttgaagcgcatgtgagagtgcacgtgattatttggggcttcaactcgttgtttttaagatagggtttctgttcaaccatgtagttcatttatgaagttgccttttgagcttgaatcgtagcacaatgtgctaatcctacagtcttctgatcag

Basic information

species Physcomitrella patens
transcript PP1S4_215V6.1
intron # 5
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|22491814|gb|BU051737.1|BU051737
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162264332|gb|FC440498.1|FC440498
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|18333863|gb|BJ165879.1|BJ165879
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|18332708|gb|BJ164721.1|BJ164721
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|19789046|gb|BQ041060.1|BQ041060
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162245009|gb|FC424967.1|FC424967
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162238939|gb|FC417703.1|FC417703
EST:     TTGGGTCGCANACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTT
EST: gi|208371352|gb|DC944516.1|DC944516
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|6102388|gb|AW126858.1|AW126858
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162245008|gb|FC424966.1|FC424966
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|67696462|gb|BJ956695.1|BJ956695
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162238938|gb|FC417702.1|FC417702
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162179827|gb|FC356418.1|FC356418
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162264333|gb|FC440499.1|FC440499
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162235909|gb|FC411652.1|FC411652
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
EST: gi|162199674|gb|FC375913.1|FC375913
EST:     TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTG                         GATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT
genomic: TTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTT

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: 34 (upstream exon), 34 (downstream exon)
Score: 29

GCAGCTTTCTCCAATGACAAGGGAAGCATAGTTGGGTCGCAAACTGGTGCGGTGTTGTGTGGGCACAAACAAATGGCACTGgtatactttc ... ttctgatcagGATGTGACTGACATACTTCTGGCCGCTGGAGTAGCGAAGGAAAAAATTCTTCTAAATTTTTGAGGAGATTTTCGTTCAGTG




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