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

...attgcattatactcattagtttttataccttgtaaatgtatgttgcctaataaataagaacttgtttcgtactttttttccctttgcatactatatgcagTTCCTTCGCTACTGCTAAGAAGATTGGGGCCACTGGGTTGCGAGGAAGATCTTGGCCAGACTTAGACATGCTTCCATTTGGATGGCTTACTGATCCAA

Basic information

species Zea mays
transcript GRMZM2G028307_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G028307_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g33420.1 (Oryza sativa), 3'ss of exon 6
----------------------------------------------------------attg-cattatactcattagtttttataccttgtaaatgtatgttgcctaataaataagaacttgtttcgtactttttttccctttgcatactatatgcagTTCCTTCGCTACTGCTAAGAAGATTGGGGCCACTGGGTTGCGAGGAAGATCTTGGCCAGACTTAGACATGCTTCCATTTGGATGGCTTACTGATCCAA
                                                          |||  | ||  |||   |  ||||   |   | ||||      |       |   ||  || |   |   | ||| ||  ||| || |||| | ||  ||||||||| ||| |||| || || ||||||||||  || || |||||||||||||||||||| ||||||||||| |||||||| ||||||||  || || 
gtaaattgagccaatatgctctgtctgcagtttctgactgcaagaattcaatccattaattaacctttaacttgctttttttctcattatctaaaaacgcttgattatttttctagtaaataaatcatttcttcttaccccattacatattgtacacagTTCCTTTGCTGCTGCAAATAAAATTGGGGCCATAGGATTACGAGGAAGATCTTGGCCAGATTTAGACATGCTCCCATTTGGCTGGCTTACAAATGCAG

upper sequence: GRMZM2G028307_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA05G30770.1 (Glycine max), 3'ss of exon 7
--------------------------attgcattatactcattagttttt--ataccttgtaaatgta-tgttgcctaataaa--------taagaacttgtttcgtactttttttccctttgcatactatatgcagTTCCTTCGCTACTGCTAAGAAGATTGGGGCCACTGGGTTGCGAGGAAGATCTTGGCCAGACTTAGACATGCTTCCATTTGGATGGCTTACTGATCCAA
                             |  || |  | || || |||    ||  ||| ||   |  |  | |    |  |        ||  | | | || | ||  |||  | | |||  || ||  |  |||    ||  |||| ||||| | ||| || |  |  || ||    ||||  || ||||| || || |||||||| |||||||||||||| ||||||||| 
gtgattaagctgtctatatttctgtttaagatttttttttatcagctttgcagtatgttgcaatcatgctacttctctgtgtacattctgttatcaccatattacataactttagttcattta-attctgaac-cagGGATTTTTCTACAGCTAATATGATAGGAGGAAAAGGTTTAAAGGGAAATTCCTGGCCTGATTTGGACATGCTACCATTTGGATGGCTAACTGATCCAG

upper sequence: GRMZM2G028307_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA14G05450.1 (Glycine max), 3'ss of exon 6
----------------attgcattatactcattagtttttatacc-ttgtaaatgtatgttgcctaataaataagaacttgtttcgtactttttttccctttgcatactatatgcagTTCCTTCGCTACTGCTAAGAAGATTGGGGCCACTGGGTTGCGAGGAAGATCTTGGCCAGACTTAGACATGCTTCCATTTGGATGGCTTACTGATCCAA
                 |   ||  |    || |   | | | || ||  |  | | |  |||      |     || || | |    || |  ||    || ||  ||   | |||    || ||| |  ||||    || || |  |  || ||    |||| ||||||||| || || |||||||| |||||||||||||| ||||||||| 
gtcattaattaaatccttcctatgtttgatatcaaaatatgtgcccttccacctttcttctgctactctaccttcaaattatctacatctctgatttatctttcactct---ttcagAGATTTTGCTGCATCTAATTTAATAGGAGGAAAAGGTTTAAAGGGAAAATCTTGGCCTGATTTGGACATGCTGCCATTTGGATGGCTAACTGATCCAG

upper sequence: GRMZM2G028307_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA08G13960.1 (Glycine max), 3'ss of exon 6
-----------------------attgcattatactcattagttttta---taccttgtaa--atg-tatgttgcctaataaataagaact---tgtttcgtactttttttccctttgcatactatatgcagTTCCTTCGCTACTGCTAAGAAGATTGGGGCCACTGGGTTGCGAGGAAGATCTTGGCCAGACTTAGACATGCTTCCATTTGGATGGCTTACTGATCCAA
                        ||  |   |  | || ||| |||    ||  ||| ||  ||| ||  |  ||  ||| |||  | |    | || | ||  |||  | | |||  || ||  |  |||    ||  |||| ||||| | ||| || |  |  || |||   ||||  || ||||| || || |||||||| |||||||||||||| ||||||||| 
gtgattaagctgtctatatttctgtttaagattttttatcagtctttgcagtatgttgcaatcatgctacttctccgtatacatattatcaccatattacataactttagttcattta-attctgaac-cagGGATTTTTCTACAGCTAATATGATAGGAGGGAAAGGTTTGAAGGGAAATTCCTGGCCTGATTTGGACATGCTACCATTTGGATGGCTAACTGATCCAG

upper sequence: GRMZM2G028307_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G43530.1 (Glycine max), 3'ss of exon 5
-------attgcattatactcattagtttttataccttgtaaatgtatgttgcctaataaataagaacttgtttc----gtactttttttccctttgcatactatatgcagTTCCTTCGCTACTGCTAAGAAGATTGGGGCCACTGGGTTGCGAGGAAGATCTTGGCCAGACTTAGACATGCTTCCATTTGGATGGCTTACTGATCCAA
       | |  ||| | |  ||   | |||  |      | |  |   | ||    | |         || | |      |  |||  | | ||||  | || | | |||   ||| ||| |  ||||   ||| || |  |  || ||    |||| ||| ||||| || || |||||||| |||||||||||||| ||||||||| 
gtcattaactaaattcttcctatatatgtttgaattcaaaatacatggatcgctctttcacctttcttctgctactataacatctttgattcttttgatttctct-ttcagAGACTTTGCTGCATCTAATTTGATAGGAGGAAAAGGTTTAAAGGGAAAATCATGGCCTGATTTGGACATGCTACCATTTGGATGGCTAACTGATCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctaataaataagaacttgtttcgtactttttttccctttgcatactatatgcagTTCCTTCGCTACTGCTAAGAAGATTGGGGCCACTGGGTTGCGAGGAAGATCTTGGCCAGACTTAGACATGCTTCCATTTGGATGGCTTACTGATCCAA
 gcctaat  putative branch site (score: 3)
                          ctttttttccctttgc  putative PPT
     taaataagaa  TA-rich tract