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'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcgtaatttttctcttttactccggagaaaattagaatgattgttttagaattctctgttttgtgattgatgagattagGAAGGGATTGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCC

Basic information

species Arabidopsis thaliana
transcript AT4G35740.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35740.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os02g54020.1 (Oryza sativa), 3'ss of exon 2
------------------------------------------------------------------gtaagtcgtaatttttctcttttactccggagaaaattagaatgattgttttagaattctctgttttgtgattg----atgagatt-------agGAAGGGATTGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCC
                                                                  || |   | | ||||  |  |   | | | || |   |      |   |||  | |   |   || | | | ||    | |  |||       |||||||||||||||||| ||||||||||| ||||| |||||||| || || |||||||| |||||  |||  ||  | || || || |||||| | || ||
gtgctcttcccgtctgtgtttgtgcttgtagtctttatttctttttagttttgctgaatatttctggtcaaaagaacttttgttgctgatcactgaagtatgctgtctgaaacttttgtgcaccatggattctattaatgtaacaagcaatttatttctagGAAGGGATTGCTTTTGTTTGATGCCAACTGGAGGTGGAAAATCAATGTGCTATCAGATTCCTGCTCTAGTGAAGTCAGGCATTGTTCTTGTTATCTCACC

upper sequence: AT4G35740.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA09G08180.1 (Glycine max), 3'ss of exon 1
--------gtaagtcgtaattttt-ctcttttactccggagaaaattagaat-gattgttttag-aatt----ctctgttttgtgattgatgagat-tagGAAGGGATTGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCC
         |   | ||  ||||  | |   ||    |  | || |||   | |||| ||  |   |||    |||| | || | |||  |  | |  ||| |  ||||| |||||  | |||||||| |||||||| || ||||| ||||||||||| |||||||| || ||| | || || || ||||| || |  ||
cagtttggtttgtttgtttttttcacacccctagcatgtggtaatttaagtttgatttttccattgattgtggctctttatttttattttttggctgcagGGAAAGATTGTTTTTGTCTTATGCCAACTGGAGGAGGCAAGTCGATGTGTTATCAGATCCCTGCATTGGCAAAAGCAGGCATTGTGCTTGTCGTTTGCCC

upper sequence: AT4G35740.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv11s0016g00850.t01 (Vitis vinifera), 3'ss of exon 1
--------------gta-agtcgtaatttttctcttttactccggagaaaattagaatgattgttttagaattctctgttttgtg---attgatgagattagGAAGGGATTGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCC
              ||| |||  |  |     || |||  |  |||     ||  ||   | | ||| |  |    || || |||   |||     |   |||||| ||||| |||||  | |||||||| ||||||||||| || || ||||||||||| |||||| | || ||||| || || || || || || | |||
cagtcagaaagagtgtagagttatgttggcgatcctttg-tatggaatttttttaaacagt-gatttgggttctgttgattagtgctaattttcttgtgcagGAAGAGATTGTTTTTGTCTCATGCCAACAGGAGGAGGAAAGTCAATGTGTTATCAGATTCCTGCACTGGCAAAACCAGGGATTGTGCTCGTGGTTTGTCC

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|19876818|gb|AU237649.1|AU237649
EST:     TGCAGATTTCAGAGGGAAGCAATTGGAGGCTATTCAAGCTGTTGTATCTG                         GAAGGGATTGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTT
genomic: TGCAGATTTCAGAGGGAAGCAATTGGAGGCTATTCAAGCTGTTGTATCTGgtaagtcgta ... atgagattagGAAGGGATTGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagaaaattagaatgattgttttagaattctctgttttgtgattgatgagattagGAAGGGATTGCTTTTGCTTGATGCCAACGGGAGGAGGAAAATCGATTTGTTATCAGATACCTGCATTAGCTAAACCTGGAATCGTCCTTGTTGTGTCTCC
                                        gattgat  putative branch site (score: 4)
               attgttttagaatt  TA-rich tract