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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAATTCGCAGGGTTGCAGAGGTTTGGGCGCGCCAGTCTCGTTGCCATAGCGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggcgattggatctatttcttgtgttcttttatggtattcagtcacgtaagagtcagtgatgttgaaccttatcgcacagcacatctcaatggtaagaagaaattcctcaactctttggcgaccctgtactatag

Basic information

species Physcomitrella patens
transcript PP1S61_208V6.1
intron # 2
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|162241098|gb|FC417743.1|FC417743
EST:     CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGG                         GGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
genomic: CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
EST: gi|162173452|gb|FC349831.1|FC349831
EST:     CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGG                         GGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
genomic: CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
EST: gi|162209806|gb|FC385740.1|FC385740
EST:     CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGG                         GGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
genomic: CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
EST: gi|162190314|gb|FC365328.1|FC365328
EST:     CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGG                         GGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
genomic: CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
EST: gi|100377053|gb|BY968340.1|BY968340
EST:     CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCCG                         GGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
genomic: CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
EST: gi|162186363|gb|FC361671.1|FC361671
EST:     CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGG                         GGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
genomic: CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
EST: gi|100370508|gb|BY985444.1|BY985444
EST:     CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGG                         GGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
genomic: CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
EST: gi|208350385|gb|DC906087.1|DC906087
EST:     CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGG                         GGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA
genomic: CGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGA

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), 34 (downstream exon)
Score: 20

TGAATTCGCAGGGTTGCAGAGGTTTGGGCGCGCCAGTCTCGTTGCCATAGCGGCAGCCTCGCTTTGCTACTCTAGTCCAGATCCTGCGCTTGCCTTCCGGgtacgtaggc ... tgtactatagGGCGGTGGGCCATACGGACAAGAGGTGACCCGCGGGCAGGACCTGACTGGACGGGACTACAGTGGATTGACTCTAATAAAACAAGACTTTAAAACG




<











<


<