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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCCGCTTTTCAAGAGACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctcaatttcacctcactggcagtgaccagtcaattactgttgcatcacgatcaaccctttccatccagtcgtgtttaattttgtcttcagctt...

Basic information

species Physcomitrella patens
transcript PP1S450_21V6.2
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|67719128|gb|BJ969387.1|BJ969387
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|208362694|gb|DC931059.1|DC931059
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|208354190|gb|DC902446.1|DC902446
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|162234870|gb|FC410643.1|FC410643
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100423621|gb|BY958333.1|BY958333
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100386209|gb|BY987876.1|BY987876
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100379688|gb|BY949894.1|BY949894
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|18348143|gb|BJ180190.1|BJ180190
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|162163264|gb|FC339382.1|FC339382
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100369089|gb|BY985015.1|BY985015
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGTGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|162218488|gb|FC395065.1|FC395065
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100363338|gb|BY984475.1|BY984475
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|208400620|gb|DC904596.1|DC904596
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCGCTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100388664|gb|BY970812.1|BY970812
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100370598|gb|BY948423.1|BY948423
EST:     GACCACAGTTTCTCTTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|208344405|gb|DC912764.1|DC912764
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100436499|gb|BY961248.1|BY961248
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|162268623|gb|FC443677.1|FC443677
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|162227018|gb|FC403362.1|FC403362
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|162265941|gb|FC442944.1|FC442944
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|100357521|gb|BY946437.1|BY946437
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|162176323|gb|FC353508.1|FC353508
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT
EST: gi|208345086|gb|DC909448.1|DC909448
EST:     GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAG                         GAGAACAGAATGCACCGATTGGGGCANTGCCAGGTTGCCAGCGCCTTGGAT
genomic: GACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGAT

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), 30 (downstream exon)
Score: 11

AGGCCACGAAGAAATCGCAGATCTGCAGCTCTTCGTGCCGCTTTTCAAGAGACCACAGTTTCTCCTGCGAACTTCATTCTTCCACTATTTGTCCATGAAGgtttgccctc ... gtggactcagGAGAACAGAATGCACCGATTGGGGCAATGCCAGGTTGCCAGCGCCTTGGATGGCGTCATGGGCTCATTGATGAG




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