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

...acagtattgcagcaagtcagagttcagtcgcaagattttaaagagtagagcaggaaaacttagtatggcatttcatattttcattaactttgttttgcagACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCG

Basic information

species Zea mays
transcript GRMZM2G095757_T02
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 4
acagtattgcagcaagtcagagttcagtcgcaagattttaaagagtagagcagga---aaacttagtatggcatttcatattttcattaactttgttttgcagACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCG
  || ||||  |||     |   |   |   || ||  ||||    ||| ||  |     | || | |||| ||| |||| | |  |  ||||  | |||||||| |||||||||||||||||||| |||||||||||||| |||||||||||||| |
-gagaattgt-gcatcattggtcttgttataaatatcataaaagagagaacaaaacctgtagtttgcatgggatt-catactctgttccacttaatcttgcagACCCGTGATGATGCTAGGCAATTTATGAAGTATCTTCACCCTGATCTTGGTGTTG

upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 5
acagtattgcagcaagtca---gagttcagtcgcaagattttaaagagtagagcaggaaaactta-gtatggcatttcatattttcattaactttgttttgcagACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCG
  |   ||||     ||     |   | ||||       | |   |  |  |||  |  ||   | ||     |      ||| ||| |   ||     | ||||  |||||||||||| | || || ||||||| |||||||||||||||||| || |
-taactttgccttctgttgcatggtcttagtcatttagctct---gtttccagctagtgaatgaaagtggactaacatgcattctcaattttttgtccatacagAAGCGTGATGATGCTCGACAGTTTATGAAGTTTCTTCATCCTGATCTTGGCGTTG

upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 7
-acagtattgcagcaagtcagagttcagtcgcaagattttaaagagtagagcaggaaaactta-gtatggcatttcatattttcattaactttgttt-tgcagACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCG
  || | |        |    |  | ||||    | ||     |  |  |||| |  |||  | || |   |     |||| |||  |  |||||   | ||||  |||||||| ||| | || || ||||||| ||||||||||||||||||||| |
gtcattgtcttctgttgcataatcttagtcatttg-ttgctctgtctccagcaagtgaacgaaagtgtactaacatgtattctca--atttttgtccctacagAAGCGTGATGACGCTCGACAGTTTATGAAGTTTCTTCATCCTGATCTTGGTGTTG

upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 4
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 5
-acagtattgcagcaagtca---gagttcagtcgcaagattttaaagagtagagcaggaaaacttagtatggcatttcatattttcattaactttgttttgcagACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCG
     | || |   || |     ||   || |        |||     |     |||  |||   ||||| | ||   |   ||||   | || |  ||| ||||  |||||||||||| ||||||||||||||| ||| ||||||||||||||||| |
tgtgtttttccctgaatttccttgacaccaattatggatctttggtatgatttccagttaaa---agtattg-atagtagtctttctgaatctctcatttccagAAACGTGATGATGCTCGGCAATTCATGAAGTTTCTCCATCCTGATCTTGGTGTTG

upper sequence: GRMZM2G095757_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S159_14V6.1 (Physcomitrella patens), 3'ss of exon 4
----acagtattgcagcaagtcagagttcagtcgcaagattttaaagagtagagcaggaaaacttagtatggcatttcatattttcattaactttgttttgcagACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCG
    |||||         | |     ||||||    || |      |  | |    |    |   ||  ||        | ||||| |        | | ||||| ||||||||||||| |||||||  |||||||| | ||||| |||||||| ||| 
gcaaacagtgactgtctgattatttcttcagttctgagttaacttggctttgctttgagttatacagcttgttgaactgttttttcttcg----catgtggcagAATCGTGATGATGCTCGGCAATTTTTGAAGTATTTGCATCCGGATCTTGGCGTCC

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|211278210|gb|FL461478.1|FL461478
EST:     ATGGGATGACAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTTCAG                         ACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGT
genomic: ATGGGATGACAGTTGTTTACCTTGTCGCCCTCACTTTCTTGCTTTTTCAGgtgaatgcag ... tgttttgcagACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagagcaggaaaacttagtatggcatttcatattttcattaactttgttttgcagACTCGTGATGATGCTAGGCAATTCATGAAGTATCTTCATCCTGATCTTGGTGTCG
                                    cattaac  putative branch site (score: 2)
                                          ctttgtttt  CT-rich tract
                        atttcatattttcatt  TA-rich tract