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

gtgattatatacaccgaatccaaaccattgaatcaattcactttattattcgggattttgattttgtgtttgtttgcagCTGTGCCAATGGTGGAAGCAATGGTGGCTCTAGTTCTTGTGGATCAATTGATGGCGCAATACGCACAATGCCATTTGTTTCCAATAAATCCAGAGTTGCA

Basic information

species Arabidopsis thaliana
transcript AT1G48850.3
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G48850.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA20G31980.1 (Glycine max), 3'ss of exon 12
-----gtgattatatacaccgaa--tccaaaccattg---aatcaattcactttat---tattcgggattttg-attttg-------tgtttgtttgcagCTGTGCCAATGGTGGAAGCAATGGTGGCTCTAGTTCTTGTGGATCAATTGATGGCGCAATACGCACAATGCCATTTGTTTCCAATAAATCCAGAGTTGCA
     | |   || || | | ||  ||  || ||  |   |||   || | | | |   ||| | || ||||  ||  ||       |   ||||||||||||| || ||||| ||||||||||| ||| | ||||||||||| ||||||||||| ||||| || || ||  || | |||||  ||||  |||| |||||
ttcttgaggacatctaaaactaatgtcagaaacaaaggagaatttgtttattatgtgtctatgcagggttttctatcatgacaaaatttgatgtttgcagCTGTACCTATGGTAGAAGCAATGGTAGCTTTGGTTCTTGTGGACCAATTGATGGCACAATATGCGCAGTGTAATCTTTTTCCCGTAAACTCAGATTTGCA

upper sequence: AT1G48850.2 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA10G35560.1 (Glycine max), 3'ss of exon 12
------gtgattatatacaccgaatccaaaccatt--gaatca-attcactttatta-----------ttcgggattttgattttgtgtttg-tttgcagCTGTGCCAATGGTGGAAGCAATGGTGGCTCTAGTTCTTGTGGATCAATTGATGGCGCAATACGCACAATGCCATTTGTTTCCAATAAATCCAGAGTTGCA
       |||  | ||     |  | |||  | ||  || |   |||  | | | ||           ||| | |||||   ||||  ||||  |||||||||| || ||||| || |||||||| ||| | ||||||||||| ||||||||||| ||||| || || ||  || |||||||  ||||  |||| |||||
tctatcatgaggaaatttcaggttttcaactctttttgacttgcattttcatcagtaggaaagaaaatttctgaattttttgtttggatttggcttgcagCTGTACCTATGGTAGAGGCAATGGTAGCTTTGGTTCTTGTGGACCAATTGATGGCACAATATGCGCAGTGTAATCTGTTTCCCGTAAACTCAGATTTGCA
















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|124804280|gb|EH892179.1|EH892179
EST:     AAATGATTGCGCGTGGTCGTTCATGATCCTTGTGTTGTTCCACGAG                         CTGTGCCAATGGTGGAAGCAATGGTGGCTCTAGTTCTTGTGGAT
genomic: AAATGATTGCGCGTGGTCG-TCATGATCCTTGTGTTGTTCCACGAGgtgattatat ... ttgtttgcagCTGTGCCAATGGTGGAAGCAATGGTGGCTCTAGTTCTTGTGGAT
EST: gi|125277803|gb|EL291888.1|EL291888
EST:     GTGGTCGTCATGATCCTTGTGTTGTTCCACGAG                         CTGTGCCAATGGTGGAAGCAATGGTGGCT
genomic: GTGGTCGTCATGATCCTTGTGTTGTTCCACGAGgtgattatat ... ttgtttgcagCTGTGCCAATGGTGGAAGCAATGGTGGCT
EST: gi|124993653|gb|EL065922.1|EL065922
EST:     TTGTTCCACGAG                         CTGTGCCAATGGTGGAAGCAATGGTGGCTCTAGTTCTTGTGGATCAATTGA
genomic: TTGTTCCACGAGgtgattatat ... ttgtttgcagCTGTGCCAATGGTGGAAGCAATGGTGGCTCTAGTTCTTGTGGATCAATTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattgaatcaattcactttattattcgggattttgattttgtgtttgtttgcagCTGTGCCAATGGTGGAAGCAATGGTGGCTCTAGTTCTTGTGGATCAATTGATGGCGCAATACGCACAATGCCATTTGTTTCCAATAAATCCAGAGTTGCA
                               ttttgat  putative branch site (score: 4)
                                            tttgttt  putative PPT
          aattcactttattatt  TA-rich tract