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1  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGAAGACGTTCCGGTTCACCAGACGGAACATCGCTGTGGCGCTCATCTTCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttttcgtgcgttcgtgcttcgtgggataggcatgtctgtcggagggttttcagcgttaggaagtgattttgaatgagttagggttcggtccaa...

Basic information

species Physcomitrella patens
transcript PP1S395_22V6.1
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|162231660|gb|FC408253.1|FC408253
EST:     TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|19790383|gb|BQ041845.1|BQ041845
EST:     TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|67570796|gb|BJ943620.1|BJ943620
EST:     TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|162214218|gb|FC390264.1|FC390264
EST:     TGGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGGGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|162219976|gb|FC396791.1|FC396791
EST:     TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|162231659|gb|FC408252.1|FC408252
EST:     TGGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|162214219|gb|FC390265.1|FC390265
EST:     TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|67576867|gb|BJ949691.1|BJ949691
EST:     TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|67694094|gb|BJ954327.1|BJ954327
EST:     TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
EST: gi|67716457|gb|BJ966717.1|BJ966717
EST:     TCGGCGCCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTT                         CACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT
genomic: TCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACT

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), 35 (downstream exon)
Score: 16

GGAGAAGACGTTCCGGTTCACCAGACGGAACATCGCTGTGGCGCTCATCTTCGGCGTCGCGGTGCCCTTCTTGACCTACCAGGGCATCACGGGCGAATTTgtaagtgttt ... tctgatgcagCACAAGCAGGATATCGCTGCTGGGCAGCCTCGGCGCAAGTTTTTGGGCACTCAGTAGCCTAGTGGATTGATTAGAACATGCCTTTCATAGGGAAGGATAG




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