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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcaattcattattattctgttacgtcgagcattattttattttttttttttccaacaattactgtgcaagttttcaagttattaatgcttatttgtagtgttgccgattgctcatacatgcttggtttcagtccacaaatggatttgaaatccaatatgtcggttaggaagatgacgtgttacttgtgtatgcagGAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGACCCTCAAATTCCTGAATCTGTAAATTTACCTAAATACGCAGGGCCAGAG

Basic information

species Physcomitrella patens
transcript PP1S6_375V6.1
intron # 15
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|37822904|gb|BJ580970.1|BJ580970
EST:     GCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAG                         GAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
genomic: GCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAGgttcaattca ... gtgtatgcagGAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
EST: gi|162272490|gb|FC448492.1|FC448492
EST:     GCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAG                         GAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
genomic: GCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAGgttcaattca ... gtgtatgcagGAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
EST: gi|37840081|gb|BJ598089.1|BJ598089
EST:     GCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAG                         GAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
genomic: GCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAGgttcaattca ... gtgtatgcagGAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
EST: gi|162179801|gb|FC356392.1|FC356392
EST:     GTGATATCCTTCGACTTGTTAACGTCTCTTTACAG                         GAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
genomic: GTGATATCCTTCGACTTGTTAACGTCTCTTTACAGgttcaattca ... gtgtatgcagGAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
EST: gi|7207408|gb|AW561410.1|AW561410
EST:     GCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAG                         GAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA
genomic: GCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAGgttcaattca ... gtgtatgcagGAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGA

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), 22 (downstream exon)
Score: 3

CCAGCTTCAAAGCATAGGCCAATCTCTTATGCAAAACCTGATGGTGTGATATCCTTCGACTTGTTAACGTCTCTTTACAGgttcaattca ... gtgtatgcagGAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGACCCTCAAATTCCTGAATCTGTAAATTTACCTAAATACGCAGGGCCAGAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggatttgaaatccaatatgtcggttaggaagatgacgtgttacttgtgtatgcagGAGTAGTACAAATCACGAGCATGATCAACCACCACATTTGCGTCTACGTGACCCTCAAATTCCTGAATCTGTAAATTTACCTAAATACGCAGGGCCAGAG
             aatatgt  TA-rich tract