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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCAAATCGGATTCCCCCTCCCCTGATCGTTCCCCTTCTCCTGACTGGCTCAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcctcttctctttattcctcgacctctttccgtgccacctccgtgttcattgccgcactccctcatgttaggtcgttacggcctctctccgtt...

Basic information

species Physcomitrella patens
transcript PP1S367_8V6.1
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|208398286|gb|DC912299.1|DC912299
EST:     CAATTTGCCNTGCCCCGTCAAATATGATGAAATCCANCGCGAGAACATTA                         TGTCCCTTAAGCCNGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|18366481|gb|BJ198560.1|BJ198560
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|100390127|gb|BY989207.1|BY989207
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|67575990|gb|BJ948814.1|BJ948814
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|67717560|gb|BJ967819.1|BJ967819
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|67716961|gb|BJ967220.1|BJ967220
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|162242296|gb|FC418873.1|FC418873
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|208357650|gb|DC934116.1|DC934116
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|18342298|gb|BJ174333.1|BJ174333
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|208344796|gb|DC912630.1|DC912630
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|208374571|gb|DC940760.1|DC940760
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
EST: gi|100413081|gb|BY992578.1|BY992578
EST:     CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTA                         TGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC
genomic: CAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGC

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: 32 (upstream exon), 31 (downstream exon)
Score: 12

GCCAAATCGGATTCCCCCTCCCCTGATCGTTCCCCTTCTCCTGACTGGCTCAATTTGCCCTGCCCCGTCAAATATGATGAAATCCAGCGCGAGAACATTAgtaagtctcc ... ggatctctagTGTCCCTTAAGCCGGAGCTGTTCGAGGGCCTTCGATTCGACTTCACAAAGCCACTCAATCAACGGTTTTCACTAAGTCACAG




<











<


<