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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGAATACAGTCCGTGTTTCAGTTGTCTGATGGTTCAGGCATGGCCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacctctcctcttaccattgaattcaattttgttgagtaaactggatgattgaaccttggtatctgctttaggtttctgaatgaccacaagaaa...

Basic information

species Physcomitrella patens
transcript PP1S199_127V6.1
intron # 13
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|162180389|gb|FC355810.1|FC355810
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
EST: gi|162195103|gb|FC371378.1|FC371378
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
EST: gi|37846883|gb|BJ604891.1|BJ604891
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
EST: gi|67722055|gb|BJ972314.1|BJ972314
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
EST: gi|162150713|gb|FC327609.1|FC327609
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
EST: gi|162192956|gb|FC371458.1|FC371458
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGC-GTACTTCCTATGGAC
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGAC
EST: gi|162192955|gb|FC371457.1|FC371457
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
EST: gi|162224470|gb|FC399846.1|FC399846
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
EST: gi|162194122|gb|FC369465.1|FC369465
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
EST: gi|37844425|gb|BJ602433.1|BJ602433
EST:     CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAG                         GTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG
genomic: CCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAG

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: 24 (upstream exon), 12 (downstream exon)
Score: 1

GAGAATACAGTCCGTGTTTCAGTTGTCTGATGGTTCAGGCATGGCCGTAACCATTGCTCGCTACGAAACTCCTGCTCACATCAACATTGACAAGgtgctccacc ... atgattgcagGTGGGTATCACACCAGATCGCCCTCTTCCTGCCGTACTTCCTATGGACGAGGAGGCTTTCTGCCGTTGCATTGAAGATCCAAACGCAGATTGCAACGTTT




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