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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGACGAAGGCGGCTCTGTGCTCTTTGATCCAAGTGCTCTGCTGAATTGCTGCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagctattttgccctcttgcaattcgttgtcttgaacgctgacaatctgtttcgattttcatgaataattcccatgtcttcgatgctttgttgttg...

Basic information

species Physcomitrella patens
transcript PP1S68_114V6.1
intron # 1
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|18327613|gb|BJ159616.1|BJ159616
EST:     GCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|18355874|gb|BJ187933.1|BJ187933
EST:     GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67704760|gb|BJ964993.1|BJ964993
EST:     CTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: CTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162203238|gb|FC379335.1|FC379335
EST:     GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162260329|gb|FC435632.1|FC435632
EST:     GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|18349166|gb|BJ181215.1|BJ181215
EST:     GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|37824878|gb|BJ582944.1|BJ582944
EST:     ATCCCTCAACCATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTG
genomic: ATCCCTCAA-CATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTG
EST: gi|18353919|gb|BJ185974.1|BJ185974
EST:     GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|67719044|gb|BJ969303.1|BJ969303
EST:     CTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: CTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|162260330|gb|FC435633.1|FC435633
EST:     GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
EST: gi|18345767|gb|BJ177810.1|BJ177810
EST:     GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGG                         GCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC
genomic: GCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGC

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: 33 (upstream exon), 33 (downstream exon)
Score: 33

TGACGAAGGCGGCTCTGTGCTCTTTGATCCAAGTGCTCTGCTGAATTGCTGCTCTGTTTGCGCGATTGCCCCTGCGCGTTGGCGCCATCCCTCAACATGGgttcgagcta ... tgttctgcagGCGCGTACAAGTACATTGAAGAGCTATGGAGGAAGAAGCAGTCTGATGTGCTGCGATTCCTATTGCGTGTGCGATGCTGGGAGTACAGGCAGCTCCCAGG




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