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'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagctatatgagtattggcttataccttcatattgcttctgtaacagaacttatgcctgattttaccatttgcaatcatgtcgtttcttttaattttcagGTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACTTGATGGTGACCATGATTGTTTTATTGATAAGGACAATCTCATCAAATAT

Basic information

species Arabidopsis thaliana
transcript AT1G03960.2
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G03960.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os10g33680.1 (Oryza sativa), 3'ss of exon 7
--gagctatatgagtattggcttataccttcatattgcttctgtaacagaacttat-gcctgattttaccatttgcaatcatgtcgtttcttttaattttcagGTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACTTGATGGTGACCATGATTGTTTTATTGATAAGGACAATCTCATCAAATAT
  ||  ||  ||  | |    |||||   |     |||   |  ||||  | || |  | |  |||| |||  ||   | || |  |      ||||   ||| |||||||| || |||||||| || |||||||||||||||||||||||  | ||    || ||||||| ||| |||||||| || || || |||| ||||
acgaattacttggat-tcaagttatattatttatgtgcgaatcaaacaagattttttacattttttttccaaatgtgttaattttctgatgcctaatg--cagATACTTCTCATACGAGCACTTTTATGTGATATACTGCAAATTTTGGGAGTTGGACACAGATCATGATTTTTTGATTGATAAAGAGAACCTTATCAGATAT

upper sequence: AT1G03960.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G148323_T01 (Zea mays), 3'ss of exon 7
gagctatatgagtatt--ggcttataccttcatattgcttctgtaacagaacttatgcctgattttaccatttgc--aatcatgtcgtttcttttaattttcagGTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACTTGATGGTGACCATGATTGTTTTATTGATAAGGACAATCTCATCAAATAT
   | || ||  |  |  || ||| |  |    | || ||   | | | |   | |  |||  | || | ||| |  | | |      ||   | |   | ||| || ||||| ||||| ||||| || ||||| ||||||||||| ||||| || ||||  ||||| |||| ||| ||||||||||| |||||||||||||||
---ccatttgttttgtgtggattacatttgttcactgttttctttatatagtct-taactgtgtataacgtttactgagttaataatcttggatcatggtgcagATATTTCTCATATGAACACTTTTATGTGATCTACTGCAAATTCTGGGAGCTGGATGCAGACCACGATTTTTTGATTGATAAGGAAAATCTCATCAAATAT

upper sequence: AT1G03960.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EDP08306 (Chlamydomonas reinhardtii), 3'ss of exon 3
gagctatatgagtattggcttataccttcatattgcttctgtaacaga---actta----tgcctgatt--ttaccatttgcaatcatgtcgtttcttttaattttcagGTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACTTGATGGTGACCATGATTGTTTTATTGATAAGGACAATCTCATCAAATAT
 | | |   ||| |  ||||     ||||   |  |  ||| | |  |   ||  |      || | |    | ||     |   | |  |  | | |   ||  ||| || ||||||||| |||||||||||||| || |||||||| || ||||| || ||    ||||| || |      | || |||    | ||          
caccaagccgagcagcggct-gcggcttcccctcacgcctgcagcccacccacccagcctcacccgctcgcctccctccctccggcctaccaatgcatcagATCCTCAAGTTCTTCTCCTACGAGCACTTCTACGTCATCTACTGCAAGTTCTGGGAGCTGGACCAGGACCACGACTTCCAGCTGGACAAGACAGACCTGG--------

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|164157927|gb|ES191412.1|ES191412
EST:     GACATTAATAAAATTATTAG                         GTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACT
genomic: GACATTAATAAAATTATTAGgtgagtttat ... taattttcagGTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaacttatgcctgattttaccatttgcaatcatgtcgtttcttttaattttcagGTACTTCTCCTATGAGCACTTCTACGTGATATACTGCAAATTTTGGGAACTTGATGGTGACCATGATTGTTTTATTGATAAGGACAATCTCATCAAATAT
                                          ttttaat  putative branch site (score: 3)
                                      tttcttttaattttc  CT-rich tract
                                      tttcttttaattttca  TA-rich tract