Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCATGAAGATAAGGGCGACATATGTGTTGTCGTGAATGCGAAGGATATTACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGGgtatgcagaagttaaagagttttgcactgaaataattccatcagttgttagtatttgtgtacaaagtaccctgcagttggagtgggaataatggatgtga...

Basic information

species Physcomitrella patens
transcript PP1S347_31V6.1
intron # 3
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|208391203|gb|DC942087.1|DC942087
EST:     ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGG                         CTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
genomic: ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGGgtatgcagaa ... gtggacacagCTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
EST: gi|67578563|gb|BJ950730.1|BJ950730
EST:     ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGG                         CTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
genomic: ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGGgtatgcagaa ... gtggacacagCTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
EST: gi|208347748|gb|DC912923.1|DC912923
EST:     ACACTTACAGGAAACAAGTTAACCGATAGAAAATATTATTGGCACACAGG                         CTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
genomic: ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGGgtatgcagaa ... gtggacacagCTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
EST: gi|208394250|gb|DC933918.1|DC933918
EST:     ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGG                         CTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
genomic: ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGGgtatgcagaa ... gtggacacagCTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
EST: gi|162215635|gb|FC391688.1|FC391688
EST:     AAAAAATATTATTGGCACACAGG                         CTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
genomic: AAAAAATATTATTGGCACACAGGgtatgcagaa ... gtggacacagCTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
EST: gi|22492604|gb|BU052527.1|BU052527
EST:     ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGG                         CTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
genomic: ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGGgtatgcagaa ... gtggacacagCTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
EST: gi|22491678|gb|BU051601.1|BU051601
EST:     ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGG                         CTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA
genomic: ACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGGgtatgcagaa ... gtggacacagCTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGA

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: 27 (upstream exon), 33 (downstream exon)
Score: 5

CTCATGAAGATAAGGGCGACATATGTGTTGTCGTGAATGCGAAGGATATTACACTTACAGGAAACAAGTTAACCGATAAAAAATATTATTGGCACACAGGgtatgcagaa ... gtggacacagCTACATAGGTCATGTGAAGGAGAGGACTGTTAAGGAACAAATGGTACGCGATTCAACTGAGGTGCTTCGTAAAGCCGTCCACCGCATGCTTCCCCGCAAC




<











<


<