Skip to another splice site:
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 5'  3'   		2  
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCACTATTGAGAACTGTGTGTCATTCGAAGGTCCTGTGACTGCCACTTCTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagaccaggacatatgtttcaaatgcttgcagaatcagaagtttgttcgtgcagttttccttgagaattaatatgacgtgaagtaacgggaatgag...

Basic information

species Physcomitrella patens
transcript PP1S83_99V6.1
intron # 3
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|162201611|gb|FC378273.1|FC378273
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162193268|gb|FC371536.1|FC371536
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCANAACGTATTCAG                         GTAAAATTTGAGGAGGGGAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162170236|gb|FC347356.1|FC347356
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTTTTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162201612|gb|FC378274.1|FC378274
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162195612|gb|FC371913.1|FC371913
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|19783876|gb|BQ040084.1|BQ040084
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162170235|gb|FC347355.1|FC347355
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTTTTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162164657|gb|FC340704.1|FC340704
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162164658|gb|FC340705.1|FC340705
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162216999|gb|FC392272.1|FC392272
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|162216998|gb|FC392271.1|FC392271
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
EST: gi|208353435|gb|DC922489.1|DC922489
EST:     CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAG                         GTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT
genomic: CTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCT

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), 32 (downstream exon)
Score: 14

GCTCACTATTGAGAACTGTGTGTCATTCGAAGGTCCTGTGACTGCCACTTCTTTTAGTGCTTCTGCTTCGTTCGAAATTCGCAGCCCAAAACGTATTCAGgtaacagacc ... gtggcatcagGTAAAATTTGAGGAGGGAAGCATATCCGCCCCGAAGGTTTCAAACTCCGCTGAGATTCCTTCAAGCTTGGACATAATGGGGCAGAAGATCGACTTTTCCG




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