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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCCTCTTCTTCGCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttggtttccacgtgttttgtgcttgctgccatatttgatgtgtaggcttctctgggccttgttctggcagccttgtttagatgaggtatgctg...

Basic information

species Physcomitrella patens
transcript PP1S97_78V6.2
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|67696433|gb|BJ956666.1|BJ956666
EST:     CTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67571063|gb|BJ943887.1|BJ943887
EST:     CTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCG-TCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67571535|gb|BJ944359.1|BJ944359
EST:     CTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|162260531|gb|FC435105.1|FC435105
EST:     CCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67572512|gb|BJ945336.1|BJ945336
EST:     CACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67696650|gb|BJ956883.1|BJ956883
EST:     TCGCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: TCGCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|162279259|gb|FC455806.1|FC455806
EST:     CGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|162278150|gb|FC454385.1|FC454385
EST:     ACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: ACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|18332577|gb|BJ164590.1|BJ164590
EST:     TCGCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: TCGCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67569399|gb|BJ942223.1|BJ942223
EST:     TCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: TCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|162279258|gb|FC455805.1|FC455805
EST:     CGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|162260530|gb|FC435104.1|FC435104
EST:     ACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: ACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67578333|gb|BJ950500.1|BJ950500
EST:     GCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: GCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67699663|gb|BJ959896.1|BJ959896
EST:     CAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67573050|gb|BJ945874.1|BJ945874
EST:     CACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67571332|gb|BJ944156.1|BJ944156
EST:     ACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: ACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|162246688|gb|FC425281.1|FC425281
EST:     CTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67573265|gb|BJ946089.1|BJ946089
EST:     TCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: TCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67576166|gb|BJ948990.1|BJ948990
EST:     GACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: GACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67692660|gb|BJ952893.1|BJ952893
EST:     CCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67695885|gb|BJ956118.1|BJ956118
EST:     TACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: TACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67572806|gb|BJ945630.1|BJ945630
EST:     CTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67572841|gb|BJ945665.1|BJ945665
EST:     CCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67571783|gb|BJ944607.1|BJ944607
EST:     CTCCGAACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: CTCCG-ACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCG-TCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|18329135|gb|BJ161141.1|BJ161141
EST:     TCGCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: TCGCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
EST: gi|67694876|gb|BJ955109.1|BJ955109
EST:     ATTTCGTCATG                         GTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG
genomic: ATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG

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: 161

TGCCTCTTCTTCGCACTCCGACTCGCTCCTTGCGAGCTCCAATACTCGCATTTCGTCATGgtacgtcttg ... ttggtttcagGTGAAGTACGCGAGGGACCCGGATAATTCGACCAAGG




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