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

gtttcttctgcagatttatgatttttattccataagttgttgaattttgtattcatcctagacacattgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG

Basic information

species Zea mays
transcript GRMZM2G131118_T01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os11g06930.1 (Oryza sativa), 3'ss of exon 7
gtttcttctgcagatt---tatgattt----ttattccataagttgttgaattttgta-ttcatcctagac-----acattgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
|||  |||| ||||||   ||| ||||    | |||  |      | ||  || |  | ||||| ||||||      ||||    ||| ||||| || ||||||||||||||||||| || ||||||||||| |||||| |||| || ||||| || ||||| ||||  ||||||||||||||||||||||||||| |||
gttgtttctccagattgaatattattttaaatgatttaaactaccgatgggttatacaattcattctagactaacagcattactcactgttttgctcaagGTAATGACTGCACACCCTGAATGTGCTACATTAGACACATCAATTCTCGATGCTCTGCATATTATGCGCGATGGCAAATTCTTGCATATTCCTGTTGTTG

upper sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA04G38480.1 (Glycine max), 3'ss of exon 7
------------------------------------------------------------gtttcttctgcagatttatgatt-tttattccataagtt---gttgaattttgtattcatcctagacacattgtctact-attttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                                                             |||||||| | |  || || || ||| ||| |    ||     | |||||    ||| || |          |  ||| |||||     |||| |||||| || ||||  | |||||  |  | || |||||||| ||||||||||| ||||| |||||| |||| || ||||| ||| |||||||  | |
gtggctatgattttattttgtgaagtaaccatacaggaaattggtttattctgtgatgtcttttcttcttccggcttgtgcttattttttctaggtattcagaattaatttgactttcttctttattcttcccttcacttattttttgttagGTGATGACTCCAAACCCACAATGTGCATCTCTAGAGACAACAATTCTTGATGCACTGCATATGATGCATAATGGGAAGTTCTTACATCTTCCTGTGGTGG

upper sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G00560.3 (Glycine max), 3'ss of exon 7
---------------------------------------------------------------------gtttcttctgcagatttatgatttttattccataagttgttgaattttgtattcatcctagacacattgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                                                                      |||||| ||     || ||||||||        |  | || |    ||  || ||  |   |    |   | |  || | ||  ||||||||||| || |||| || |||||  || | || ||||| || || |||||||| ||||| ||||||||||| |||||||| ||| |||||||  | |
gttgttatttcattttaatatttattttttggaagtgacttgagtggaaagagggtcgttgtgagaggcctttcttttgtttggttctgattttt----tgctaaatattcagaactgagttgattttcttcttgattcttccctttctaatgtagGTAATGACTCCAAACCCAGATTGTGCATCAATAGATACAACGATACTGGATGCACTGCATATGATGCATGATGGGAAATTCTTACATCTTCCTGTGGTAG

upper sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 5
lower sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 7
------------------gtttcttctgcagatttatgatttttattccataagttgttgaattttgtattcatcctagacaca-ttgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                   |   |  |  || | | |   ||| ||     ||||| |||    ||||| | | | |     || |||| |  | |  | ||| |||| |||||| || |||| || || || || ||||| ||||||||||||||||| ||||| || |||||||| || || || || ||| |||||||| | |
cttgaaacgagagacctaatggatcttatagctctct--ctttgatcatgcaagttcttg----ttgtacttagcatgatttcacttgtgttttttccttatctagGTGATGACTCCAAACCCTGAATGCGCAACCTTGGAGACAACAATCCTTGATGCGCTACACATAATGCATGACGGGAAGTTTTTACATCTTCCTGTTGTAG

upper sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 5
lower sequence: PP1S86_26V6.1 (Physcomitrella patens), 3'ss of exon 7
-----------------------------------------------------------------------------gtttcttctgcagatttatgatttttattccataa--gttgttgaattttgtattcatcctagacacattgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                                                                               ||||| |  |  ||||  | |   ||   ||    |||  |||   | | |    || ||         |  |  |  |  || ||||| |||||  |  | || || ||||||   || || || ||  |  | ||||| || |||||||||||||||||||||||| | ||| |||| |||   |
gtccgatgtgctaacatccactgtgctttctatgggtaccgatttgaatggaaaggcgaaggccttgaaaatgagaaagttctttt-taattttactagtgcaatcatatgcttgttcgtgatcctggcagctgtcataattttgaattgaaggacct--atgcagGTCATGACACCCAATCCTGAGTGTGCTGGTTTTGATACCACCCTTGTGGATGCGCTTCATATCATGCATGATGGCAAATTCCTCCATCTTCCAGTTACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taagttgttgaattttgtattcatcctagacacattgtctactattttgatccagGTAATGACTGCACACCCCGACTGTGCTACATTGGACACAACAATCCTTGATGCACTACATATCATGCATGATGGCAAATTCTTGCATATTCCTGTTCTTG
                                            ttttgat  putative branch site (score: 4)
                                         ctatttt  CT-rich tract
       ttgaattttgtatt  TA-rich tract