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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgtactgcagacctatcattttgttttgtagaatcatgttgttgcatgattctttctctgctaatcctgtctcttactcaattttcag

Basic information

species Arabidopsis thaliana
transcript AT3G13670.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G017835_T02 (Zea mays), 5'ss of exon 8
------------------------------TCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgta--ctgcagacctatcattttgttttgtagaatcatgttgttgcatgattctttctctgctaatcctgtctc-ttactcaattttcag------------------
                               |||||||| ||||| |||||||| || |||||| |||| ||| | || ||||||||  | || |||||||| || || ||||||||||| ||||||||||||   | | |    ||| |||  | || |    ||   |||  ||    || |||||    || || ||| |    | | | ||||  |                  
AGGAACAGTCAGATATGCTAGTGTCCATGCACATTTAGGAAGAACCGCTAGCAGGAGAGATGATTTGGAGTCACTTGCCTATAcactagtattccttcaccggggcaggttgccatggcagggatatcaggtatcttactgtataatcttttaatcttattctctccatttggagc-catttttttcttgagtagtcttgtttgaccattgatttttttgtgggacctgtgtttacag

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G017835_T03 (Zea mays), 5'ss of exon 9
TCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgtac--tgcagacctatcattttgttttgtagaatcatgttgttgcatgattctttctctgctaatcctgtctc-ttactcaattttcag------------------
 |||||||| ||||| |||||||| || |||||| |||| ||| | || ||||||||  | || |||||||| || || ||||||||||| ||||||||||||   | | |    ||| |||  | || |    ||   |||  ||    || |||||    || || ||| |    | | | ||||  |                  
ACATTTAGGAAGAACCGCTAGCAGGAGAGATGATTTGGAGTCACTTGCCTATACACTAGTATTCCTTCACCGGGGCAGGTTGCCATGGCAGGGATATCAGgtatcttactgtataatcttttaatcttattctctccatttggagc-catttttttcttgagtagtcttgtttgaccattgatttttttgtgggacctgtgtttacag

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA08G47680.3 (Glycine max), 5'ss of exon 7
TCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgtactgcagacctatcattttgttttgtag------aatcatgttgttgcatgattctttctctgctaatcctgtctcttactcaattttcag-------
|||||| || ||||||||||| |||||||||||||| |||||  | ||||||||||| ||||| |||||   ||| || || || |||||||| |||||||||   |       | ||||| | || |        | |       |||    ||   |  | |   |||  | | |  | |  |||| || |       
TCATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCATAAAGGCAGGTTACCCTGGCAAGGTTATCAGgtatatccatttatttattttatattctcaccaagtacttcctccattgtgaaataaatgttttaacaattattttttgttccaaattatctgttgtttt

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA18G53810.1 (Glycine max), 5'ss of exon 9
TCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgta---ctgcagacctatcattttgttttgtagaatcat--------------gttgttgcatgattctttctctgctaatcctgtctcttactcaattttcag
 ||||| || ||||||||||| |||||||||||||| |||||  | ||||||||||| ||||| |||||   ||| || || || |||||||| |||||||||   |     |  |||   ||| |||| ||   ||||               ||||   || | | ||| | |   ||| || | |  | |  |||| |   
-CATTTGGGAAGAACTGCTAGTAGAAGGGATGATCTTGAATCTCTTGCATATACACTCATCTTCCTTCATAAAGGCAGGTTACCTTGGCAAGGTTATCAGGtatatccatttatttatttatttattttatattctcatcaagtacttcttccattgtgaaataaatgtttttttagcaattcttttttgttccaaattat---

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G38770.1 (Glycine max), 5'ss of exon 9
TCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgtactgcagacctatcattttgttttgtagaatcatgttgttgcatgattc-tttctctgctaatcctgtctcttactcaattttcag----------
|||||| |||||||||||||| ||||| |||||||| |||||  | ||||| |||||  | || |||||    ||  |||| ||||||||||| ||||||||||         || |  ||  | || || |   |  ||| |||   ||| || || | |  ||  | ||||   || | ||| |            
TCATTTGGGGAGAACTGCTAGTAGAAGAGATGATCTTGAATCTCTTGCATACACACTAGTATTCCTTCATAAGGGCCGATTACCATGGCAAGGTTATCAGgtacatggattaaattacatttctatggagtaatttactgt-gcaaatttcattcctttacatattttatctcaatcttattttaccttgtctgttag

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G44050.1 (Glycine max), 5'ss of exon 9
TCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgtactgcagacctatcattttgttttgtagaatcatgttg---ttgcatgattc-tttctctgctaatcctgtctcttactcaattttcag-----------
|||||| |||||||||||||| ||||| |||||||| |||||  | ||||| |||||  |||| || ||    ||  |||| ||||||||||| || |||||||    ||  |||  |       | | || |  | ||    |||||   ||| || || | |  ||  | | ||   ||  |||||              
TCATTTGGGGAGAACTGCTAGTAGAAGAGATGATCTTGAATCTCTTGCATACACACTAGTCTTCCTCCATAAGGGCCGATTACCATGGCAAGGTTACCAGgtacatgggatttattttacatgcctatggagtattttttactttgcaaatttcgttcctttacatattttatttcaatctttattttaccttgtatgttag

upper sequence: AT3G13670.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv06s0004g01090.t01 (Vitis vinifera), 5'ss of exon 9
TCATTTAGGGAGAACTGCTAGCAGAAGGGATGATCTGGAATCATTAGCATATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgtac-tgcagacctatc-attttgttttg-tagaatcatgttgttgcatgattctttctctgctaatcctgtctcttactcaattttcag
||| || || |||||||| |||||||| || ||||| || ||  | ||||||||||| ||||| ||||| || || || || || |||||||| |||||||||  ||   |     | ||||   |  | | |  ||  || |||   | ||||    | ||    | |   | |||| |    | | ||
TCACTTGGGAAGAACTGCCAGCAGAAGAGACGATCTAGAGTCTCTTGCATATACACTCATCTTCCTTCATCGTGGCAGGTTACCCTGGCAAGGCTATCAGgtatatgttcaaaagcctatttaactgcgcttgtctctagtagttaagt-attcaacttatgtgtgtgcatccacttattttcctgttag

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|86063829|gb|DR359586.1|DR359586
EST:     ATACNCTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAG                         GGAGATAACAAGTCATTCCTTGTTTGCAAAAAGAAGATGGCAACATCGCCG
genomic: ATACACTGATCTTTCTTCACCGAGGTAGATTGCCATGGCAAGGATATCAGgtactgcaga ... caattttcagGGAGATAACAAGTCATTCCTTGTTTGCAAAAAGAAGATGGCAACATCGCCG
EST: gi|124789698|gb|EH879377.1|EH879377
EST:     TTGCCATGGCAAGGATATCAG                         GGAGATAACAAGTCATTCCTTGTTTGCAAAAAGAAGATGGCAACATCGCCG
genomic: TTGCCATGGCAAGGATATCAGgtactgcaga ... caattttcagGGAGATAACAAGTCATTCCTTGTTTGCAAAAAGAAGATGGCAACATCGCCG