Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaacttagactttattgaatattcctaacctatgatctacttgaagattctaatgggcagttttgtgcaatgtccacgacgtggattggttcaagac...

Basic information

species Physcomitrella patens
transcript PP1S109_267V6.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S109_267V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: LOC_Os03g11720.1 (Oryza sativa), 5'ss of exon 1
GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaacttagactttattgaatattcctaacctatgatctacttgaagattctaatgggcagttttgtgcaatgtccacgacgtggattggttcaagac--------------------
||||||| |||| ||||||||    ||||||   || || || || |  ||||| |||||||| |||||||||||||| || || ||||||||||| ||||||        ||| ||||| | | ||  |  |  |    |      | |   ||||   ||   |||   ||  ||    | |||||    |   |                       
GTGGGCTGACAAGTTCTCCTATGAAAACTACAAGGGATCAACTCCAACATTGTATATCTGGAATGACATGAATGAACCATCAGTCTTCAATGGCCCTGAGgtatgc----aactgtattgcacaatctcattcattatgttgtgacgataaagtaatcaacacaattga--aacatcttgcatgtggaccaatcttatttaaatatgcttctttgaatag

upper sequence: PP1S109_267V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G163129_T01 (Zea mays), 5'ss of exon 1
GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtaca--acttagactttattgaatattcctaacctatgatctact-tgaagattctaatgggca-------gttttgtgcaatgtccacga-cgtggattggttcaagac---
||||||| |||| ||||||||    || |||   || || || || |   ||||||| ||||| || |||||||| || ||||| ||||||||||||||||||    | |||  | |  |    |     |  | | |||  | |  ||| ||     |  |||        |   |||||| | |     | | |   |   | |  ||    
GTGGGCTGACAAGTTCTCCTATGAAAATTACAAGGGATCAACTCCAACACTGTACATTTGGAATGATATGAATGAGCCATCTGTCTTCAATGGCCCCGAGgtatgtcatttaatcgtggtacccttgcattctcttgtgagttgcgatgatgaaatatagaggcgaaaatgggacctgtgcattcttggtaaacatttttctttccttgaatag

upper sequence: PP1S109_267V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G034575_T01 (Zea mays), 5'ss of exon 1
GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaacttagactttattgaatattcctaacctatgatcta-cttgaagattctaatgggcagttttgtgcaatgtccacgacgtggattggttcaagac---
||||||| |||| ||||||||    || |||   || || || || |   | ||||| |||||||| |||||||| || ||||| ||||||||||| |||||    |   |  ||| ||   |  |   |   ||| ||| | |||  ||||| || |  |||      ||   ||   | |   |    |  |  | |     
GTGGGCTGACAAGTTCTCCTATGAAAATTACAAGGGATCAACTCCAACACTCTACATTTGGAACGATATGAATGAGCCATCTGTCTTCAATGGCCCTGAGgttagtccctg--tttgtttccttctatgattatataatccagcttatagattata-taagca-cacaatgacctgcttatggattatcataatctaggcatct

upper sequence: PP1S109_267V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA04G38630.1 (Glycine max), 5'ss of exon 1
GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaacttagactttattgaatattcctaacctatgatctacttgaagattctaatgggcagttttgtgcaatgtccacgacgtggattggttcaagac
||||||| | || ||||| |||   |  || |  ||||| || |||  | | ||||| ||||| |||||||||||||||||||| |||||||| || ||||||   ||     ||||| || |  |    |  | |  |    |    | || || || |   |           |   |    |  ||   ||  || |
GTGGGCTGATAAGTTCTCTTACCAGAGTTATGAGGGTTCCACGCCTTCTCTTTACATATGGAATGACATGAATGAACCTTCTGTCTTCAATGGGCCTGAGgtatgcctatttttttatggattggtttctatttcttttagtttccttgtttttattgtgatttggaagttggaatgtgccttttcaatgtttttgaggc

upper sequence: PP1S109_267V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GLYMA06G16370.1 (Glycine max), 5'ss of exon 1
GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtaca---acttagactttattgaata----ttcctaacctatgatctacttga--agattctaatgggcagttttgtgcaatgtccacgacgtggattggttcaagac
||||||| | || |   | |||   || || |  ||||| || |||    | ||||| ||||| ||||||||||||||||| || |||||||| || ||||||        ||  ||||  || ||     || ||  | | |  | | ||||    |||| | || || |  || |     || |       ||  || |        
GTGGGCTGATAAGTCTGCTTACCAGAATTATGAGGGTTCAACGCCTTCGCTTTACATATGGAATGACATGAATGAACCTTCCGTCTTCAATGGGCCAGAGgtatgtatgtctattctttcatgcattcgtttttctctcttttagtttccttgttttgattgtgattgggaagttgggatg-tgccttttcaatgtttttg--------

upper sequence: PP1S109_267V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: AT5G63840.1 (Arabidopsis thaliana), 5'ss of exon 1
GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaacttagactttattgaatattcctaacctatgatctacttgaagattcta-atgggcagttttgtgcaatgtccacgacgtggattggttcaagac--
||||| |   |  ||||| || |  ||||| || ||||| || ||    ||||||| |||||| ||||||||||| |||||||| |||||||| ||||||||| |||||     |   |||||  || |    | |  |    ||   | || |   |   | || | |  || |   ||         | || |        
GTGGGGTGGGAGGTTCTCGTATAAGAACTATGTTGGTTCAACTCCATCATTGTACACCTGGAATGACATGAATGAGCCTTCTGTATTCAATGGTCCCGAGgtataactt---tctgtctgaatggtctttttttcttgttccgttattgtttttctgtaatctgtatagctcatttctcatattcattttgggattgcagttg

upper sequence: PP1S109_267V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: Vv05s0029g01090.t01 (Vitis vinifera), 5'ss of exon 1
GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaacttagactttattgaatattcctaacc-tatgatctacttgaagattctaatgggcagttttgtgcaatgtccacgacgtggattggttcaagac-
|||| || | || |||||   ||  ||||| || || || || |||    ||||||| ||||| |||||||||||||||||||| || |||||||| ||||||             |||  || ||  | |   ||  || |   ||  |  |  | |      | || | |||  |  ||  |   ||       |  |  
GTGGTCTGAGAAGTTCTCTCTCAAGAACTATGTTGGATCAACTCCTTGGCTGTACATTTGGAATGACATGAATGAACCTTCTGTCTTTAATGGCCCTGAGgtatgttgcttgtcccatttgattttattcataataacatttgactgt-gtcttaagttctttctatttttcaa-atttacttcaaagaacaaggaaccatc

upper sequence: PP1S109_267V6.2 (Physcomitrella patens), 5'ss of exon 2
lower sequence: EDP04532 (Chlamydomonas reinhardtii), 5'ss of exon 7
GTGGGCTAACAAATTCTCCTACAGTAACTACGTAGGTTCGACCCCTATTTTGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaacttagactttattgaatattcctaacctatgatctacttgaagattctaatgggcagttttgtgcaat--gtccacgacgtggattggttcaagac---
||||||  |  | ||| ||      || |||   ||    |||       ||||||||||||||||||||||||| || || |||||||| || |||||||| |     ||     |  | |   |   |      | |   |       | | |    | |      |||     |    | ||   |  | | |  | ||   
GTGGGCGCAGCAGTTCACCACGGACAAGTACCAGGGCAGCACCAAGCACCTGTACATCTGGAACGACATGAATGAGCCGTCCGTGTTCAACGGACCCGAGgtgcgggggag----caggggaggcttgaaggggggggttc-cacacctttccgagcacggaaccaaatgcggcaggaatgccacacaggctcggtatacacaca

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|162193025|gb|FC369395.1|FC369395
EST:     TGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAG                         GCAACGATGCCAAAAGATGCAATTCACTATGGTGGCGTGGAGCACCGCGAC
genomic: TGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaactta ... tctctgttagGCAACGATGCCAAAAGATGCAATTCACTATGGTGGCGTGGAGCACCGCGAC
EST: gi|162209159|gb|FC385378.1|FC385378
EST:     TGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAG                         GCAACGATGCCAAAAGATGCAATTCACTATGGTGGCGTGGAGCACCGCGAC
genomic: TGTACATCTGGAACGACATGAATGAACCTTCTGTGTTCAATGGCCCCGAGgtacaactta ... tctctgttagGCAACGATGCCAAAAGATGCAATTCACTATGGTGGCGTGGAGCACCGCGAC