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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCAAGAGGAGTACGTTGTTACCAAGAATGATTCGAATGAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgttacttcctcctccgtttttcttcttttgtacattgtattcagtaaccttattggcttcattttgcagaaattttttcgattactcttagg...

Basic information

species Physcomitrella patens
transcript PP1S110_13V6.1
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|162166028|gb|FC340424.1|FC340424
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
EST: gi|100451985|gb|CJ975042.1|CJ975042
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
EST: gi|208352398|gb|DC906181.1|DC906181
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
EST: gi|18372257|gb|BJ203859.1|BJ203859
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAAGTGGGGTCTTTCAGCACTA
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGA-GTGGG-TCTTTCAGCACTA
EST: gi|100429860|gb|BY978125.1|BY978125
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
EST: gi|100440859|gb|BY962347.1|BY962347
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
EST: gi|100442213|gb|BY963106.1|BY963106
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
EST: gi|18356867|gb|BJ188926.1|BJ188926
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGG
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGG
EST: gi|208357241|gb|DC910652.1|DC910652
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
EST: gi|162176403|gb|FC353588.1|FC353588
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
EST: gi|162184458|gb|FC359204.1|FC359204
EST:     GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACAT                         TGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT
genomic: GAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATT

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), 32 (downstream exon)
Score: 4

AGCAAGAGGAGTACGTTGTTACCAAGAATGATTCGAATGAGTACATTGAAAGCATCGCTGAATCGCAAGGATCTGGGTCTTCTTACATgtacgtttgt ... atttttgcagTGGATCACCTCTTTTATGGATCGGTGTGGGAGTGGGTCTTTCAGCACTATTCTCTTTT




<











<


<