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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttatatcttttaaataccttgatgatgattcaaattcccttgtatgcattattgtacatacactcaaatttgtatcgtgttggacttattttagTCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTGTCAATAACTCACAAGGATCACTATGTCAACATTGCGAGGCGACGGGCTG

Basic information

species Arabidopsis thaliana
transcript AT1G55880.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G55880.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G128744_T01 (Zea mays), 3'ss of exon 1
gttatatct--tttaaataccttgatgat--gattcaaattcccttgtatgcattattgtacatacactca-aatttgtatcgtgttggacttattttagTCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTGTCAATAACTCACAAGGATCACTATGTCAACATTGCGAGGCGACGGGCTG
|||  || |  | ||   | |||        ||      ||    ||| ||     ||   | |  |     |||||   |    |   | |  ||  |||||||||||||||| || ||||||||| |||||||  ||||| | || || |||||||||||||  || || | |||||||||||| ||  || ||||| 
gttccatttaatgtattcaacttagcagccagaactccttttgtctgtctgttgcctttctcctgtatatgcaatttacttgaaataatattgtttccagTCTCAAATAATTGAGGCGCTTGGAGCTACTGTTGAACGAGTGCGCCCTGTTTCAATAACTCACAGAGACCATTTTGTCAACATTGCCAGAAGAAGGGCTT

upper sequence: AT1G55880.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G01780.2 (Glycine max), 3'ss of exon 3
-------------------gttatatcttttaaataccttgatgatgattcaaattcccttgtatgcattattgtacatacactcaaatttgtatcgtgttggacttattttagTCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTGTCAATAACTCACAAGGATCACTATGTCAACATTGCGAGGCGACGGGCTG
                    |   ||| | ||||| |  | ||||  ||  |          | |    | ||||  | | | | |   |||  | | ||    |    || ||||||||||| ||||||||||||| ||  ||||||| |||||||| || ||||| || || ||||| || || | |||||| ||||| ||  |||||||  
gtattttataatggttttaatgtaatcatgtaaattctgttatga-aatctagccataaacctctaagattttgtgtaca-attgatgattggcttgcgtgaatcaaccttcagTCTCAAATACTTGAAGCCCTTGGGGCAACTGTTGAAAGAGTGAGACCGGTGTCCATCACCCACAAAGACCATTTTGTCAATATTGCAAGAAGACGGGCAT

upper sequence: AT1G55880.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G46950.1 (Glycine max), 3'ss of exon 5
--gttatatcttttaaataccttgatgatga--ttcaaattcccttgtatgcatt-----attgtacatacactcaaatttgtatcgtgttggacttattttagTCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTGTCAATAACTCACAAGGATCACTATGTCAACATTGCGAGGCGACGGGCTG---------------------------------------
   || |||  |  |   | ||  ||  |||  || | ||  || |  ||   |       |||||  |  | | |   |||| | |||||   |    || ||||||||||| ||||||||||||| ||  ||||||| |||||||| || ||||| || || ||||| || || | |||||| || || ||  |||||||                                         
gtattttataatcaagcaaactctattgtgaaattaatatagccataaatctctctaagatttgtatgtg-atttatgattgtcttgtgttaaccaaccttcagtctcaaatacttgaagcccttggggcaactgttgaaagAGTGAGACCGGTGTCCATTACCCACAAAGACCATTTTGTCAA-ATCGCAAGAAGACGGGCATCTGAAGCAAATGAGTTTGCATTGAAGCGTACAAATTCAC

upper sequence: AT1G55880.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv19s0015g00380.t01 (Vitis vinifera), 3'ss of exon 4
------gttatatcttttaaataccttgatgatgattcaaattcccttgtatgcattattgtacatacactcaaatttgtat-cgtgttggacttattttagTCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTGTCAATAACTCACAAGGATCACTATGTCAACATTGCGAGGCGACGGGCTG
       |||    ||||   | ||||  | ||    ||  || | || | |   ||||| |   | || | |||     || | |||   |||| | | ||||||||||  | ||||||||||||||| | ||||| ||||| || ||||| ||||| || || || || |||||||||||  |||| ||| || | ||| 
ggtactcttaaggttttttgtttccttt-taatttcccacttttctttatttat-ttatttttatttcatttaaaaaaaaattcttgtgcaacttttctcagTCTCAAATTCTCGAAGCCCTTGGAGCTACAGTTGAAAGAGTTAGACCAGTTTCAATTACACATAAAGACCACTATGTCAATGTTGCAAGGAGAAGAGCTT

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|86059873|gb|DR355630.1|DR355630
EST:     ATGGGTGTAAATGTCATGTTGTTATACCTGATGATGCTGCTATTGAAAAG                         TCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTG
genomic: ATGGGTGTAAATGTCATGTTGTTATACCTGATGATGCTGCTATTGAAAAGgttatatctt ... cttattttagTCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtatgcattattgtacatacactcaaatttgtatcgtgttggacttattttagTCTCAAATAATTGAAGCCCTTGGAGCTTCTGTTGAGAGAGTGAGGCCAGTGTCAATAACTCACAAGGATCACTATGTCAACATTGCGAGGCGACGGGCTG
                                             cttatttt  CT-rich tract
                          aaatttgtat  TA-rich tract