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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAATCGGCATGTACCACGACTGGTGTGAGCCTCACAGCACGTACCCACGCTCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtcagccgcattttccaaaaccaactccctcgtttgaggctcttgtgaactacagtaagagatgcccagatgttcaagttgtgcgaaggtttttaataattatatttttttactgatttggatgcaacag

Basic information

species Physcomitrella patens
transcript PP1S99_226V6.1
intron # 7
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|162166160|gb|FC342597.1|FC342597
EST:     ATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: ATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|37849674|gb|BJ607682.1|BJ607682
EST:     CACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCCTG
genomic: CACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGT-CCTG
EST: gi|162159292|gb|FC334612.1|FC334612
EST:     ACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: ACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|162179970|gb|FC356041.1|FC356041
EST:     TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGA
genomic: TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGA
EST: gi|37849726|gb|BJ607734.1|BJ607734
EST:     TCTTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|37829096|gb|BJ587108.1|BJ587108
EST:     TCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|162166161|gb|FC342598.1|FC342598
EST:     TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|162168423|gb|FC344100.1|FC344100
EST:     TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|67720233|gb|BJ970492.1|BJ970492
EST:     TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACAGCATTTTACGTCCTGA
genomic: TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|37851392|gb|BJ609400.1|BJ609400
EST:     GATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: GATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|37826387|gb|BJ584399.1|BJ584399
EST:     TCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|37841888|gb|BJ599896.1|BJ599896
EST:     TCNTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|18334187|gb|BJ166203.1|BJ166203
EST:     TCNTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGTATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|37831474|gb|BJ589486.1|BJ589486
EST:     TACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|18337693|gb|BJ169717.1|BJ169717
EST:     CTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: CTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
EST: gi|162176973|gb|FC353650.1|FC353650
EST:     TTCAGTACACTCACTACCAA                         GTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA
genomic: TTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGA

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: 26 (upstream exon), 25 (downstream exon)
Score: 2

TAATCGGCATGTACCACGACTGGTGTGAGCCTCACAGCACGTACCCACGCTCCTACGATCTCATGCACGCCGACCACTTGTTCAGTACACTCACTACCAAgtaaggagtc ... gatgcaacagGTGCAGCATTGTTAACGTGGTGATGGAGATGGACCGCATTTTACGTCCTGACGGATGGGCAGTCTTCCGTGACGGTGCGGACGTGCTCCGCGAAATAGAA




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