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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACAAGAATTTGTTCAACGAATGGACTCTGGAACTGAAGGCCATGGCTGATCGTATCATCAGCATGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAGgtaagtaaggtcttattgatttgtataaggaatgtaaatggacatagctaatgaaatgaaattcaaaatcactgtgacag

Basic information

species Arabidopsis thaliana
transcript AT5G11520.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G11520.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G094712_T04 (Zea mays), 5'ss of exon 8
GACAAGAATTTGTTCAACGAATGGACTCTGGAACTGAAGGCCATGGCTGATCGTATCATCAGCATGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAGgtaagtaaggtctt--attg--atttgtataaggaatgtaaatggacatagctaatgaaatgaaat-tcaaaatcactgtgacag---------------
  | |||   ||||||||||||||||||||||||||||||||||||||||| | ||||| | ||||||| |||| || ||  | ||  |     |  ||||||  |       |  ||||  |||| | ||   ||| | | |  |  | | |    || | |  |  |    || |  | ||                 
--CGAGA---TGTTCAACGAATGGACTCTGGAACTGAAGGCCATGGCTGATAGGATCATTAACATGAGGCAACAACTATTTAATGCGCTGAAATCCAGAGgtacttgtttctgtcaattgctatttttctacaaaatatgattaaatgttgtttgcaaagtaacttacccttttctcaattaccatttctttcatggtct
















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|301502679|gb|HO208219.1|HO208219
EST:     TCGTATCATCAGCATGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAG                         GCACTCCTGGAGACTGGAGTCACATCATAAAGCAGATTGGTATGTTTACCT
genomic: TCGTATCATCAGCATGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAGgtaagtaagg ... actgtgacagGCACTCCTGGAGACTGGAGTCACATCATAAAGCAGATTGGTATGTTTACCT
EST: gi|125203929|gb|EL218883.1|EL218883
EST:     AACAGCTTTTCGAGGCATTACGTACTCGAG                         GCACTCCTGGAGACTGGAGTCACATCATAAAGCAGATTGGTAT
genomic: AACAGCTTTTCGAGGCATTACGTACTCGAGgtaagtaagg ... actgtgacagGCACTCCTGGAGACTGGAGTCACATCATAAAGCAGATTGGTAT
EST: gi|125122710|gb|EL169168.1|EL169168
EST:     TTTCGAGGCATTACGTACTCGAG                         GCACTCCTGGAGACTGGAGTCACATCATAAAGCAGATTGGTATGTTTACCT
genomic: TTTCGAGGCATTACGTACTCGAGgtaagtaagg ... actgtgacagGCACTCCTGGAGACTGGAGTCACATCATAAAGCAGATTGGTATGTTTACCT
EST: gi|125272103|gb|EL286188.1|EL286188
EST:     TCGTATCATCAGCATGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAG                         GCACTCCTGGAGACTGGAGTCACAT
genomic: TCGTATCATCAGCATGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAGgtaagtaagg ... actgtgacagGCACTCCTGGAGACTGGAGTCACAT
EST: gi|124719994|gb|EH811396.1|EH811396
EST:     TGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAG                         GCACTCCTGGAGACTGGAGTCACATCATAAAG
genomic: TGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAGgtaagtaagg ... actgtgacagGCACTCCTGGAGACTGGAGTCACATCATAAAG
EST: gi|86085892|gb|DR381651.1|DR381651
EST:     TCTTATCATCAGCATGAGGAAACAGCTTTTCGAGGCATTACATACTCGAG                         GCACTCYTGGAGACTGGAGTCACATCATAAAGCAGATTGGTATGTTTACCT
genomic: TCGTATCATCAGCATGAGGAAACAGCTTTTCGAGGCATTACGTACTCGAGgtaagtaagg ... actgtgacagGCACTCCTGGAGACTGGAGTCACATCATAAAGCAGATTGGTATGTTTACCT