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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctctcatactttcgaagctgttgacgttattggctgtgtgtttaattctacctggataatagtaatcaatgtggctaagaggagtgtctctgtgaggcagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG

Basic information

species Physcomitrella patens
transcript PP1S192_39V6.5
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S192_39V6.4 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA19G24250.3 (Glycine max), 3'ss of exon 9
ctctcatactttcgaagctgttgacgttattggctgtgtgtttaatt-----ctacctggataatagtaatcaatgtggctaagaggagtgtctctgtgaggcagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG
     | |    | ||    || | |||||    |   || || |||      || | |  |||||    ||||  | | |||    | | |       |  ||| |||| ||  |  | || |||||||||||| |||| ||||| |||||||| ||||||||||||||||| |||
---aaacaaacaccaaatgcttaatgttatccattaaatggttcattagacattatcagcctaatatatgtcaaatttgttaatt--atttttctaccaactcagGTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAG

upper sequence: PP1S192_39V6.4 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 9
ctctcatactttcgaagctgttgacgttattggctgtgtgtttaatt-----ctacctggataatagtaatcaatgtggctaagaggagtgtctctgtgaggcagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG
       |    | ||     | | |||||    |   |  || |||      || | |  | ||      |||  | | | |    | | | |     |  ||| |||| ||  |  | || |||||||||||| |||| ||||| |||||||| ||||||||||||||||| |||
---aagcaaacaccaaatgcataatgttatccattaaataattcattagacattatcagcctgatgtatgccaaatttgttcatt--atttttttaccaactcagGTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAG

upper sequence: PP1S192_39V6.4 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA19G22690.1 (Glycine max), 3'ss of exon 9
-ctctcatactttcgaagctgttga-cgttattggctgtgtgtttaattctacctggataatagtaatcaatgtggctaagaggagtgtctctgtgagg-cagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG
   || | |    | |     | || | ||  |  ||   |  || |    |  |  ||   |    ||||| |   | |      | | |||   |   ||| || | ||  |  | || |||||||||||| |||| ||||  |||||||| ||||||||||||||| | |||
aacctaacaagacctattaaatagatctttggttacttcatagtttacatcagatcaatctaatatgtcaatcttattcatta---tttttctacaaaatcagGTTTTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAAGCCTGAGCACATTCGGGATGAGAAACTGAAG

upper sequence: PP1S192_39V6.4 (Physcomitrella patens), 3'ss of exon 9
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 9
-------------------ctctcatactttcgaagct--gttgacgttat---tggctgtgtgtttaattctacctggataatagta---atcaatg---tggctaagaggagtgtctctgtgaggcagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG
                    | || |  |  | || ||   |||    | |   ||  ||| | |   | |||  ||| |   |   |    |  |||   || ||||  |   |     |     | || |||| || ||| | |||||||| |||||||| || || |  ||||||||||| |||||||||||||| |||
gcaagtatacctgagatacttttcctgataacaaaacttcattggaaatctatgtgattgtttttcagagtctctctgtaagttcaaatgctttcatgtattgactaactgagttcataatactctgtagGTTCTTTGCCTTGTTGCCATGGAGAAACCAATATCTCTTAAACCTGAGCATATCCGGGATGAGAAAGTGAAG

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|162279046|gb|FC455073.1|FC455073
EST:     AATTATTCGGGACATAATCCAAAATCACCTCATACAG                         ATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCAT
genomic: AATTATTCGGGACATAATCCAAAATCACCTCATACAGgtttgcccta ... tgtgaggcagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctacctggataatagtaatcaatgtggctaagaggagtgtctctgtgaggcagATTCTGTGTCTTTTGGCCATGGAAAAACCAATTTCCCTCAGTCCTGAGCATATTCGGGATGAGAAAGTCAAG
                                       tgtctct  CT-rich tract
          ataatagtaatcaat  TA-rich tract