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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCTCCAGCGGATCCCTCAGAGACGGATCACATTTGGCAGCTCGCAAAAGCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcgctcctctttgatgtcaagtgtttccgtcaaggaatgtgcaggtctctttggaggcgagaggggcaaagtttctatgtgcttgacgatcgttaactgatccgcctcgtttggtgcag

Basic information

species Physcomitrella patens
transcript PP1S419_7V6.1
intron # 6
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|162194293|gb|FC369516.1|FC369516
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|100423902|gb|BY976582.1|BY976582
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162256614|gb|FC432924.1|FC432924
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162158128|gb|FC333923.1|FC333923
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162249202|gb|FC421545.1|FC421545
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162273902|gb|FC450041.1|FC450041
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162215903|gb|FC392320.1|FC392320
EST:     CTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: CTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162250241|gb|FC425492.1|FC425492
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162270721|gb|FC446334.1|FC446334
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162167391|gb|FC343094.1|FC343094
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162178773|gb|FC354510.1|FC354510
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162164877|gb|FC341366.1|FC341366
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162180667|gb|FC357024.1|FC357024
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|67701793|gb|BJ962026.1|BJ962026
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCG
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCG
EST: gi|162165033|gb|FC342224.1|FC342224
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|100386618|gb|BY970159.1|BY970159
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162188009|gb|FC364999.1|FC364999
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162173204|gb|FC349986.1|FC349986
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162240726|gb|FC416318.1|FC416318
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162235808|gb|FC412359.1|FC412359
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162245537|gb|FC423272.1|FC423272
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|100388490|gb|BY952092.1|BY952092
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|100386918|gb|BY988187.1|BY988187
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCG
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCG
EST: gi|100423651|gb|BY976495.1|BY976495
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162154367|gb|FC330706.1|FC330706
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162167824|gb|FC344554.1|FC344554
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|100426164|gb|BY958760.1|BY958760
EST:     TGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: TGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162276105|gb|FC452381.1|FC452381
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162200069|gb|FC376531.1|FC376531
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|100442367|gb|BY981391.1|BY981391
EST:     CTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: CTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|67573583|gb|BJ946407.1|BJ946407
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162168254|gb|FC344984.1|FC344984
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
EST: gi|162191586|gb|FC367631.1|FC367631
EST:     GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTT                         TACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA
genomic: GCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCA

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: 85

CGCCTCCAGCGGATCCCTCAGAGACGGATCACATTTGGCAGCTCGCAAAAGCTCACGCCACCAACAATGAAATGACTGTGCATCAATCTGTCAACCATTTgtgagtgtcg ... tttggtgcagTACGCGTTGCCACGCCGTCACCGAGCCCATGATCATCTCGACACACCGTCAGCTCAGCAAGCTTCACCCGATCCATCATCTGCTGTTCCCGCACTGCAGG




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