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

gtacatttttcacttcactgtaggaatttcttgtctaaaatcattaacatccagaaaaaaggttttttatttctcgctgcaattcatttaattgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAGAATTTGATCGGTGCATTTTACCAACCACAGTGTGTGCTAGTAGACACTG

Basic information

species Arabidopsis thaliana
transcript AT5G66120.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G66120.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G36890.1 (Glycine max), 3'ss of exon 3
----------------------------------------------gtacatttttcacttcactgtaggaatttcttgtctaaaatcattaacatccag--aaaaaaggttttttatttctcgctg--caattcatttaattgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAGAATTTGATCGGTGCATTTTACCAACCACAGTGTGTGCTAGTAGACACTG
                                               || |  |||     | |||    |  ||  ||  |  | ||  |  |   | |  |   | | | |   ||| |  | |       |  | || |       ||||| |||||||| || ||||||||||| || || ||||| || ||||| |||||  |||| ||||| ||||||||||| |||||||||||| ||||||| |
gtcttttgctgctcttttaaaaaaatattttcatgatatgtgtttattagaccttttgtggctctggctaatgttaatggttctagtctctggctctctgctatctatgttatcccattccctgttcattgggttgtgtattatgttcccagGTCGATTCTTCAGTTGGTGGCAAAACTGGGATCAATCACCGCCTTGGGAAGAACCTGATTGGTGCCTTTTACCAACCTCAGTGTGTGCTAATAGACACGG

upper sequence: AT5G66120.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G08350.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------gtacatttttcacttcactgtaggaatttcttgtctaaaatcattaacatccagaaa--aaaggttttttatttctcgct--gcaattcatttaattgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAGAATTTGATCGGTGCATTTTACCAACCACAGTGTGTGCTAGTAGACACTG
                                                || |  |||     | |||    |  ||  ||  |  | ||  |  |   | |  |   | | | |   ||| |  | |    |  |  | || |       ||||| |||||||| || ||||| ||||| || |||||||| || ||||| |||||  |||||||| | ||||||||||| |||||||||||  ||||||| |
gtcttttgctgctctttttagaaaattattttcatgatatgtttttattagaccttttgtggctctggctaatgttaatggttctagtctctggctctctgctatctatgttatcccattccctgttcattaggttgtgtattatgttcccagGTCGATTCTTCAGTTGGTGGAAAAACTGGGATAAATCACCGCCTTGGGAAGAACATGATCGGTACCTTTTACCAACCTCAGTGTGTGCTTATAGACACAG
















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|116478278|gb|EG520870.1|EG520870
EST:     ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTTTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
genomic: ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
EST: gi|116421947|gb|EG464539.1|EG464539
EST:     ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
genomic: ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
EST: gi|116450338|gb|EG492930.1|EG492930
EST:     ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
genomic: ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
EST: gi|116421951|gb|EG464543.1|EG464543
EST:     ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
genomic: ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
EST: gi|125029405|gb|EL101674.1|EL101674
EST:     TACCACTGTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
genomic: TACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
EST: gi|116421921|gb|EG464513.1|EG464513
EST:     ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
genomic: ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
EST: gi|116450349|gb|EG492941.1|EG492941
EST:     ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
genomic: ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
EST: gi|116472855|gb|EG515447.1|EG515447
EST:     ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACGGGCATAAATCATCGTCTTGGAAAG
genomic: ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
EST: gi|116421964|gb|EG464556.1|EG464556
EST:     ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAG                         GTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG
genomic: ACCTACGTGGTGTCAATTTCATCCAAATTCCTACCACTGTTATGGCACAGgtacattttt ... tgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catccagaaaaaaggttttttatttctcgctgcaattcatttaattgccctgcagGTTGATTCTTCTGTAGGTGGCAAAACAGGCATAAATCATCGTCTTGGAAAGAATTTGATCGGTGCATTTTACCAACCACAGTGTGTGCTAGTAGACACTG
                                      atttaat  putative branch site (score: 4)
                                            ttgccct  CT-rich tract
       aaaaaaggttttttat  TA-rich tract