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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAATTTTGCACTGGGGAATTCAGgtaataatatttttttagtttgacagtctgctcttgttttttgttattctaagtcaacattgatattaatatttttagcacatggatgatctgcctcaattggaaggttgtagtggaaggaattttcgtattgaatttatgaagtttgtgtttgcggcggcattggtttttgcag

Basic information

species Physcomitrella patens
transcript PP1S232_73V6.1
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|37837097|gb|BJ595105.1|BJ595105
EST:     GGCAATTTTGCACTGGGGAATTCAG                         GAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTTCCATCGTGTTA
genomic: GGCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCAC-TTTCCATCGTGTTA
EST: gi|208367447|gb|DC954935.1|DC954935
EST:     GGCAATTTTGCACTGGGGAATTCAG                         GAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
genomic: GGCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
EST: gi|208392090|gb|DC941938.1|DC941938
EST:     GGCAATTTTGCACTGGGGAATTCAG                         GAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
genomic: GGCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
EST: gi|162278032|gb|FC453851.1|FC453851
EST:     GGCAATTTTGCACTGGGGAATTCAG                         GAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
genomic: GGCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
EST: gi|18344060|gb|BJ176099.1|BJ176099
EST:     GGCAATTTTGCACTGGGGAATTCAG                         GAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
genomic: GGCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
EST: gi|18357735|gb|BJ189794.1|BJ189794
EST:     GGCAATTTTGCACTGGGGAATTCAG                         GAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
genomic: GGCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
EST: gi|208388913|gb|DC932941.1|DC932941
EST:     GGCAATTTTGCACTGGGGAATTCAG                         GAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
genomic: GGCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
EST: gi|162278033|gb|FC453852.1|FC453852
EST:     GGCAATTTTGCACTGGGGAATTCAG                         GAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT
genomic: GGCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTAT

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: 33 (upstream exon), 33 (downstream exon)
Score: 7

GCAATTTTGCACTGGGGAATTCAGgtaataatat ... gtttttgcagGAAGGGTAATAATCCCATTGGGTTCAAAACATCCACTTTCCATCGTGTTATTAAGGATTTCATGATCCAAGGAGGTGACTTCGTGAAGGGAGATGGAAGT




<











<


<