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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtacactcattcttgcttctgtatatgtatattcagcgagcatcgaaattgttgtgtacctttgttaacaaacaacctgcatctgtcacagCTGTATTTGGACATGAAGTTTGTCATATGCTTTGCATCCCAAGGTCGCTACCTATCGAGGAATTTGCACAGGGGAACTAATGAGATAATATCTAAAGCCT

Basic information

species Arabidopsis thaliana
transcript AT5G49830.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G49830.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G00570.2 (Glycine max), 3'ss of exon 7
gtttgtacactcat--tcttgcttctgtatatgtatattcagcgagcatcg-aaattgttgtgt--acctttgttaacaaacaacctgcatctgtc--acagCTGTATTTGGACATGAAGTTTGTCATATGCTTTGCATCCCAAGGTCGCTACCTATCGAGGAATTTGCACAGGGGAACTAATGAGATAATATCTAAAGCCT
    ||  | | ||  | |||||  || | || |   ||    || | | |  || ||    ||  | | |    |   || ||  | | |   |    ||| | |||||||| |||||||||||| |||| ||||| ||||| ||||| ||| | || |||||||||||  |       |||||||| ||| | |||||  
--cagtgtaataatgattttgctgatgcaaattttacttggttgacccttgtgaactgcaaagttcatcatgaccatataataattttcttacattgtgcagTTCTATTTGGATATGAAGTTTGTCGTATGTTTTGCCTCCCATGGTCGGTACTTGTCTAGGAATTTGCAACGAATTGTCAATGAGATTATAACAAAAGCAA

upper sequence: AT5G49830.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA08G23840.1 (Glycine max), 3'ss of exon 6
-------------------------------------------------------------------------gtttgtacactcattcttgcttctgtatatgtatattcagcgagcatcgaaattgttgtgtac------ctttgttaacaaacaacctgcatctgt----cacagCTGTATTTGGACATGAAGTTTGTCATATGCTTTGCATCCCAAGGTCGCTACCTATCGAGGAATTTGCACAGGGGAACTAATGAGATAATATCTAAAGCCT
                                                                              ||  |  |            |  ||| | |||   |  |  |  |  ||||    | |      | || |   |  | ||  |     | |      ||| | ||||| || |||||||||||| |||| ||||| ||||| ||||| ||| | || |||||||||||  |       |||||||| ||| | |||||  
gtatgatattggaatttgtttattatatcattcatgattttcttttaattttggttactggtaactgttataaacccatatgccaaaatagagaagaattgatgcaaattttccacggttgaaccttgtgaaatgcaaagttcattatggccttataattttttcttatattgtgcagTTCTATTTAGATATGAAGTTTGTCGTATGTTTTGCCTCCCATGGTCGGTACTTGTCAAGGAATTTGCAACGAATTGTCAATGAGATCATAACAAAAGCGA

upper sequence: AT5G49830.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv09s0018g01920.t01 (Vitis vinifera), 3'ss of exon 5
gtttgtacactcattcttgcttctgtatatgtatattcagcgagcatcgaaattgttgtgtacctttgttaacaaacaacctgcatctgtcacagCTGTATTTGGACATGAAGTTTGTCATATGCTTTGCATCCCAAGGTCGCTACCTATCGAGGAATTTGCACAGGGGAACTAATGAGATAATATCTAAAGCCT
|||| |  | |   ||   | |   | |   | |  || |      ||||  |  |          |  ||    ||   ||  |||      || | ||||||||||||||||| ||||| |||||||| || |||||||||||| ||||  |||||||| || | |     |||||||| |||||||||||  
gtttttgaaattgatccc-cattgatctgcatctgctctgtttctgtcgagttcctaaaactgacctaata-ttcacttgctaaatcatgtgtagTTCTATTTGGACATGAAGTTCGTCATCTGCTTTGCTTCACAAGGTCGCTACTTATCACGGAATTTGAACCGAGTGGTCAATGAGATCATATCTAAAGCTA

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|86087532|gb|DR383291.1|DR383291
EST:     ATGACATTGAGGAAGGTCCTCGACCTTTGGGACCTCTTGGCCTACGGCAG                         CTGTATTTGGACATGAAGTTTGTCATATGCTTTGCATCCCAAGGTCGCTAC
genomic: ATGACATTGAGGAAGGTCCTCGACCTTTGGGACCTCTTGGCCTACGGCAGgtttgtacac ... tctgtcacagCTGTATTTGGACATGAAGTTTGTCATATGCTTTGCATCCCAAGGTCGCTAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgagcatcgaaattgttgtgtacctttgttaacaaacaacctgcatctgtcacagCTGTATTTGGACATGAAGTTTGTCATATGCTTTGCATCCCAAGGTCGCTACCTATCGAGGAATTTGCACAGGGGAACTAATGAGATAATATCTAAAGCCT
                          tgttaac  putative branch site (score: 2)
         aaattgtt  TA-rich tract