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'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtgctacaaactgcgatattattgagcagattttcatcggatcgcaattctcgtttctgcatgcgtacacattttcttattactgcattttatggagtgtgtacagATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG

Basic information

species Physcomitrella patens
transcript PP1S98_26V6.1
intron # 10
splice site 3'
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|162151090|gb|FC326907.1|FC326907
EST:     ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAG                         ATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
genomic: ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAGgtgtgtgcta ... gtgtgtacagATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
EST: gi|208387186|gb|DC945485.1|DC945485
EST:     ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAG                         ATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
genomic: ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAGgtgtgtgcta ... gtgtgtacagATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
EST: gi|67692912|gb|BJ953145.1|BJ953145
EST:     ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAG                         ATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
genomic: ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAGgtgtgtgcta ... gtgtgtacagATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
EST: gi|208358626|gb|DC949961.1|DC949961
EST:     ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAG                         ATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
genomic: ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAGgtgtgtgcta ... gtgtgtacagATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
EST: gi|67698900|gb|BJ959133.1|BJ959133
EST:     ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAG                         ATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
genomic: ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAGgtgtgtgcta ... gtgtgtacagATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
EST: gi|208370667|gb|DC936155.1|DC936155
EST:     ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAG                         ATACAGGAAAA-TTGTGGA
genomic: ATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAGgtgtgtgcta ... gtgtgtacagATACAGGAAAAATTGTGGA

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: 30 (upstream exon), 31 (downstream exon)
Score: 6

GGTCTATATCGACGATGTCAGGATTATTTAAGGAGTCCATCCATAGATGTGCCAGgtgtgtgcta ... gtgtgtacagATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtttctgcatgcgtacacattttcttattactgcattttatggagtgtgtacagATACAGGAAAAATTGTGGATCTTGTTGATGTAATGTGTCTTTCAAGAG
                 acattttcttatta  TA-rich tract