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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacattttaagttaccatttttctctttgaagacttgggacctaaataaattattttttgatctctccatgtttgcttgtagGAGAAAGATGCAGCTCTAGGAAATGGTGGGTTAGGGAGACTTGCCTCGTGTTTCTTGGATTCGATGGCCACCCTAAATCTGCCTGCTTGGGGTTATGGTT

Basic information

species Arabidopsis thaliana
transcript AT3G46970.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 2
------------gtacattttaagttaccatttttctctttgaagacttgggacctaaat--aaattattttttgatc---tctccatgtttgcttgtagGAGAAAGATGCAGCTCTAGGAAATGGTGGGTTAGGGAGACTTGCCTCGTGTTTCTTGGATTCGATGGCCACCCTAAATCTGCCTGCTTGGGGTTATGGTT
              |  ||| |    |  |   |    ||  ||  | | | |  |  |    |   ||||| | | |   | | |   | ||     |||| |||||||||||||| ||||||||||| || || || || || || || || |||||||||||||| || |||||| ||||||||||||| |||||| 
ttagatttgatccgatgtttaaccaaaataaagtatggttcaaaagcatagaagttgtaccgtatccattttctaaacatgtgttctgctctgtactcagGAAAAAGATGCAGCTCTGGGAAATGGTGGCTTGGGTAGGCTCGCATCTTGCTTTTTGGATTCGATGGCAACACTAAATTTGCCTGCTTGGGGATATGGTC

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G085577_T01 (Zea mays), 3'ss of exon 2
----------------gtacattttaagttaccatttttctctt-tgaagacttgggacctaaataaattattttttgatctctccatgtttgcttgtagGAGAAAGATGCAGCTCTAGGAAATGGTGGGTTAGGGAGACTTGCCTCGTGTTTCTTGGATTCGATGGCCACCCTAAATCTGCCTGCTTGGGGTTATGGTT
                 |   |||||  || | |||    | |  | ||        |  |    |   |     || || | |     |||  |   |||| ||||||||||||||||| ||||| || || || || ||||| || || || |||||||| ||||| ||  | ||| ||||||||||||| |||||  
caaggattcatggcatctgagttttactttccaattgggatttcataaatttccataattttccaatgatgcaaattaatatttaacgattttttcacagGAAAAAGATGCAGCTCTAGGGAATGGCGGCTTGGGTAGGCTTGCATCTTGCTTTTTGGATTCAATGGCAACATTGAATTTGCCTGCTTGGGGCTATGGCC

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 3
----------------gtacattttaagttaccatttttctctttgaagacttgggacctaaataaattattttttgatctctc---catgtttgcttgtagGAGAAAGATGCAGCTCTAGGAAATGGTGGGTTAGGGAGACTTGCCTCGTGTTTCTTGGATTCGATGGCCACCCTAAATCTGCCTGCTTGGGGTTATGGTT
                 | |||||     ||    |  |   ||| || |  | |   |||||  | | ||||  ||| |  |    ||||     ||| ||||||| |||||||| ||||||||||||||  | || || ||||| || || ||  ||||||| ||||| || || ||| ||||| ||||||| |||||||
agcattttcgaaaagtctgcatttcttcatatgtatgattggttttaatatctagtgtctaaa--actcatttgctgaaccattacacatgcaactttgcagGAGAAGGATGCAGCACTAGGAAATGGTGGTCTTGGTAGGCTTGCTTCTTGCTTTCTGGATTCCATGGCAACACTTAATTTGCCTTCTTGGGGGTATGGTT

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G07480.1 (Glycine max), 3'ss of exon 2
gtacatttt----aagttaccatttttctctttgaagacttggg------acctaa---ataaa--ttattttttgatctctc---catgtttgcttgtagGAGAAAGATGCAGCTCTAGGAAATGGTGGGTTAGGGAGACTTGCCTCGTGTTTCTTGGATTCGATGGCCACCCTAAATCTGCCTGCTTGGGGTTATGGTT
   ||||||    ||||   ||||| |   | || |   ||||       | |||    |||||  | ||||  ||  |  |    | ||     ||| ||||||| |||||||| ||||||||||||||  | || || ||||| || || ||  ||||||| ||||| || || ||| ||||| ||||||| |||||| 
aagcattttccaaaagtctgcatttcttcatatgtatggttggttttaatatctagtgtataaaactcatttgctggaccattaaacgtgcaactttgcaGGAGAAGGATGCAGCACTAGGAAATGGTGGTCTTGGTAGGCTTGCTTCTTGCTTTCTGGATTCCATGGCAACACTTAATTTGCCTTCTTGGGGGTATGGT-

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|125160627|gb|EL188130.1|EL188130
EST:     CTGATGCACTGCGTACGCTGGGTTATGAGCTTGAGGAGATAGCTGAGCAG                         GAGAAAGATGCAG
genomic: CTGATGCACTGCGTACGCTGGGTTATGAGCTTGAGGAGATAGCTGAGCAGgtacatttta ... ttgcttgtagGAGAAAGATGCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaagacttgggacctaaataaattattttttgatctctccatgtttgcttgtagGAGAAAGATGCAGCTCTAGGAAATGGTGGGTTAGGGAGACTTGCCTCGTGTTTCTTGGATTCGATGGCCACCCTAAATCTGCCTGCTTGGGGTTATGGTT
                                            tttgctt  CT-rich tract
               taaataaattattttt  TA-rich tract