Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCGTGCAGGTGCCGTACACAGCTGCGGATGATTCCTTCCTAGACAAGGTTTTTGCCAAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCAgtaagtgcttaatactaatttgatccgtatctagggaatgactattatttcgagttcaggtctttagttccgctcaccgcaaatctaatttccagcgcga...

Basic information

species Physcomitrella patens
transcript PP1S94_133V6.2
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|100404235|gb|BY955323.1|BY955323
EST:     TTTGCCAAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCA                         ATTGGACGAAAATTCTCTTGCAGTTGCAAAGATTCTCGCTAACAATGGCT
genomic: TTTGCCAAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCAgtaagtgctt ... atgggcatagATTGGACGGAAATTCTCTTGCAGTTGCAAAGATTCTCGCTAACAATGGCT
EST: gi|67724422|gb|BJ974681.1|BJ974681
EST:     TTTGCCAAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCA                         ATTGGACGGAAATTCTCTTGCAGTTGCAAAGATTCTCGCTAACAATGGCTT
genomic: TTTGCCAAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCAgtaagtgctt ... atgggcatagATTGGACGGAAATTCTCTTGCAGTTGCAAAGATTCTCGCTAACAATGGCTT
EST: gi|208361962|gb|DC943445.1|DC943445
EST:     TTTGCCAAATACCGCGACGCCNAGAATACCACTGTCTACATTTTGGACCA                         ATTGGACGGAAATTCTCTTGCAGTTGCAAA
genomic: TTTGCCAAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCAgtaagtgctt ... atgggcatagATTGGACGGAAATTCTCTTGCAGTTGCAAA
EST: gi|100378304|gb|BY949784.1|BY949784
EST:     TTTGCCNAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCA                         -TTGNACGGAAATTCTCTTGCAGTTGCAAAGATTCTCGCNTAACA-TGGCT
genomic: TTTGCCAAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCAgtaagtgctt ... atgggcatagATTGGACGGAAATTCTCTTGCAGTTGCAAAGATTCTCGC-TAACAATGGCT

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: 13

CCGTGCAGGTGCCGTACACAGCTGCGGATGATTCCTTCCTAGACAAGGTTTTTGCCAAATACCGCGACGCCGAGAATACCACTGTCTACATTTTGGACCAgtaagtgctt ... atgggcatagATTGGACGGAAATTCTCTTGCAGTTGCAAAGATTCTCGCTAACAATGGCTTCGAGAAGGCGTACTCCATCAAAGGAGGCGTAGAAGGCCCCAAAGGATGG




<











<


<