Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgctactgctttggctttgttgcctctttttctccatttagttcgacctggtactgctgttcacttggttcggggagtctctattacattatagttcactttgctcagatttggtaaatggaactctctgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCAACGCAGTCTTCAATTGACGCTTTGTGCACTCCATCCCTTCTAAGTCTGC

Basic information

species Physcomitrella patens
transcript PP1S6_143V6.1
intron # 22
splice site 3'
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|162168698|gb|FC343960.1|FC343960
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|100403661|gb|BY955038.1|BY955038
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162199947|gb|FC376214.1|FC376214
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|18341296|gb|BJ173331.1|BJ173331
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGTCCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162174612|gb|FC350267.1|FC350267
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162209443|gb|FC386076.1|FC386076
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162201649|gb|FC378285.1|FC378285
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162199946|gb|FC376213.1|FC376213
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|37846501|gb|BJ604509.1|BJ604509
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTNTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162156572|gb|FC332180.1|FC332180
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162197261|gb|FC372548.1|FC372548
EST:     GCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: GCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162258203|gb|FC434602.1|FC434602
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162264669|gb|FC441667.1|FC441667
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
EST: gi|162168699|gb|FC343961.1|FC343961
EST:     TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTG                         GAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA
genomic: TGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCA

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: 39

ATCCCAAGTTGCAGCAGCTGCAGAACTAGAGAGCGGCCATAGCTCAAGTGTGTCTGCCGTCCAAAAGCACGCCGATCACGTTCTGAAAGAGGAGTACTTGgtatgctact ... tgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCAACGCAGTCTTCAATTGACGCTTTGTGCACTCCATCCCTTCTAAGTCTGC




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacattatagttcactttgctcagatttggtaaatggaactctctgtgatgcagGAGGAGCAACCTACATGTTCAACTCCCAGGAGAAGACCTATTGAAGTGCCAACGCAGTCTTCAATTGACGCTTTGTGCACTCCATCCCTTCTAAGTCTGC
                                        ctctctgt  CT-rich tract
     ttatagtt  TA-rich tract