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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagtttgttttctcttagcaaaatgaattttcttgatacaaatttactatatcatttcatctgttgattatctctatag

Basic information

species Arabidopsis thaliana
transcript AT4G04040.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os06g13810.1 (Oryza sativa), 5'ss of exon 7
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagtttgttttctcttagcaaaatgaattttcttgatacaaatttactatatcatttcatctgttgattatctctatag----------------------
|||||||| ||||||||||| ||||||||||  ||||| || || || || || ||||| |||||||||||| | || |  | |  | |   ||   |    ||  | |||  | | |   |  |  ||   |     |  ||||                      
ATATACTCTGAAATGATTGGTAATGTTATGACTGATGCACGCTCAACCGGGAAGTACTACCACTgtaagtttctgttttggttgtcagacatatgc-caaactatgatttt--tgttttcctaaacatggaaagagagttgataggagcaaactatgtttagtttga

upper sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G059151_T01 (Zea mays), 5'ss of exon 7
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagtttgttttctcttagcaaaatgaattttc--ttgatacaaat---ttactatatcatttcatctgttgattatctctatag---------------
|||||||| ||||||||||| ||||||||||  |||||| | ||||| ||||||||||| |||||||||||| |   |    | ||||||   || ||  || |||   ||    || ||  |   ||| ||| ||||  |  | || |                
ATATACTCTGAAATGATTGGCAATGTTATGACTGATGCGAGATCCACTGGAAAATACTACCACTgtaagtttatcagcagc-aacaaaataggttgtcatttaatagttatggactagtaagttggttcctctattgaaaaattatacacaccatgtgatgccat

upper sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA15G11890.1 (Glycine max), 5'ss of exon 7
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagtttgttttctcttagcaaaatgaattttcttgatacaaatt-tactatatcatttcatctgttgattatctctatag--------------------------
||||| || ||||||||||||||||||||||| ||||| || || || |||||||| || || |||||||   |    |         |  || | | | |||  | ||   | |||| || || |     |||  |  |  | ||                          
ATATATTCTGAAATGATTGGAAATGTTATGATAGATGCCCGATCAACTGGAAAATATTACCATTgtaagtacataaaatt-------gagaaactctttagatctatatagcattatagcaattaaag-actgaagactttgagagtatacctatgcttaatgtaccacctt

upper sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA09G01050.1 (Glycine max), 5'ss of exon 7
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagtttgt---ttt------ctctt---agcaaaatgaatttt-----cttgatacaaat--ttactatatcatttcatctgttgattatctctatag
||||| || ||||||||||||||||||||||| ||||| || || || |||||||| || || |||||||   |   |||      |||||   | | | ||     ||     ||  | || |||  ||| |  | ||  |      ||||||     ||   
ATATATTCTGAAATGATTGGAAATGTTATGATAGATGCCCGATCAACTGGAAAATATTACCATTgtaagtacataaatttgagaaactcttcagatctatatagcaattaaagactgaagaccaatgcttaatggaccaccttggacattgattgctgttacta

upper sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA07G39380.1 (Glycine max), 5'ss of exon 7
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagttt---------gttttctcttagcaaaatgaattttcttgatacaaa--tttactatatcatttcatctgttgattatctctatag--------
|||||  ||||||||||||| ||||||||||| ||||| || || || |||||||| || || ||||||||          |       |||| |  ||     || | |||       ||| ||   |  |     |   |  ||||  ||  |         
ATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATTgtaagttctcaaagcaggaaactctttagaactatagcaattatagattgggtgctttgctgagttgtgctgaccaatatttattgcttcacttaggaca

upper sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA17G01360.1 (Glycine max), 5'ss of exon 5
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagttt---------gttttctcttagcaaaatgaattttcttgatacaaa---tttactatatcatttcatctgttgattatctctatag-------
|||||  ||||||||||||| ||||||||||| ||||| || || || |||||||| || || ||||||||          |       |||| |  ||     || | |||        ||| ||   |        |   |  |||   ||  |        
ATATATGCAGAAATGATTGGCAATGTTATGATAGATGCTCGATCAACTGGAAAATATTACCATTgtaagttctgaaagcaggaaactctttagaactatagcaattatagatttgggtgctttgctgagttgcgctgaccaatctttaatgcttcacttaggac

upper sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 5'ss of exon 7
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagtttgttttctcttagcaaaatgaatt----ttcttga----tacaaatttactatatcatttcatctg--ttgattatctctatag---------
|| ||  ||||||||||||| ||||| ||||| ||||| || || || |||||||||||||||||||||| | ||     | |     |||||      ||||| |    | ||  ||    | || | |   | ||  || ||||  | |  |          
ATTTATGCAGAAATGATTGGGAATGTCATGATAGATGCTCGCTCAACTGGAAAATACTATCACTgtaagtatattgagggtcaaagtcatgaaaccaggttctttacctctgcattttgttcaaatgactcattttgaatttattacttattgaaatgtaatta

upper sequence: AT4G04040.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: EFJ13842 (Selaginella moellendorffii), 5'ss of exon 7
ATATACTCAGAAATGATTGGAAATGTTATGATCGATGCGCGTTCCACGGGAAAATACTATCACTgtaag---tttgttttctcttagcaaaatgaattttcttgatacaaatttactatatcatttcatctgttgattatctctatag
|||||  ||||||||||||| ||  | ||| |||| || ||||| |||||||||||||| |||||||||   ||||||  || |        | ||  | | |||     | || || |                             
ATATATGCAGAAATGATTGGGAACATCATGGTCGACGCACGTTCTACGGGAAAATACTACCACTgtaagaagtttgttgcctttagcttgttttaaagtccgtgacgaggactttctctcgagcag----------------------

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|124955874|gb|EL030849.1|EL030849
EST:     TCGATGCGCGTTCCACGGGAAAATACTATCACT                         TTGTGCGTCTTATGGGTCGTGCTGCTTCTCACATTACACTTGAATGCGCTT
genomic: TCGATGCGCGTTCCACGGGAAAATACTATCACTgtaagtttgt ... atctctatagTTGTGCGTCTTATGGGTCGTGCTGCTTCTCACATTACACTTGAATGCGCTT
EST: gi|125194385|gb|EL209339.1|EL209339
EST:     ACGGGAAAATACTATCACT                         TTGTGCGTCTTATGGGTCGTGCTGCTTCTCACATTACACTTGAATGCGCTT
genomic: ACGGGAAAATACTATCACTgtaagtttgt ... atctctatagTTGTGCGTCTTATGGGTCGTGCTGCTTCTCACATTACACTTGAATGCGCTT