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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatttgtgaactaggtcttgaaaatagctgatcgataagtttactgttttccttggagatggtcagaagttattataaataggatattaaggaatata...

Basic information

species Arabidopsis thaliana
transcript AT4G00630.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: LOC_Os04g58620.1 (Oryza sativa), 5'ss of exon 12
TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaa--tttgtgaactaggtcttgaaaatagctgatcgataagtttactgttttccttggagatggtcagaa-gttattataaataggatattaaggaatata-
||||||||||||| | || ||||| || ||||| ||||| || ||||| || ||||| ||||| ||||||||||||||||| || || ||||| ||||||||||    | ||||     || | |   |   || || ||    | | ||   |  | |||| | |    || |||  |||  |||  |||  || | | ||| 
TTTGGCTGGTCTATTGCTAGCAGAAACAGAATTCTCCTTACAGGTTGAGTCGGATATTGCTCCTTACCGTGGTCTTCTGTTAGGTCTTTTCTTTATGACGgtaaggactctgaatataatcatcattttttttg-tctatg---tcaatgagctgataggagtttgcttcaatgtttatatggataatataacaatgtacatat

upper sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G058948_T01 (Zea mays), 5'ss of exon 11
TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatt--tgtgaactaggt--cttgaaaatagctgatc---gataagtt--tactgttttccttggagatggtcagaagttattataaata----ggatattaaggaatata---------------------------------------------------------------------------------------
||||||||||||  |||| ||||| || || || ||||| || ||||| |||||||| ||||| || |||||||||||||| ||||| ||||| |||||||| | |   || ||     |  | | ||| |   | | |   |||| | |  || || | |  || ||| || ||  || ||  ||  |  |    ||  || ||  ||  ||                                                                                       
TTTGGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCCTTACAGGTTGAGTCAGATATAGCTCCTTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtaccgtaaatataattgcattaaatttcttaaacactgatatgctgctagtgctatgtttcgag-tgttcctaactttgtaccatcatcatgggcatcaaacaaattaagttatcacagaccttgctactctaatagttactacatttaacttcatattaaacataattaaccattttttggctgggaactgaag

upper sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G093643_T01 (Zea mays), 5'ss of exon 12
TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatt--tgtgaactaggtcttgaaaatagctgat-cgataagtttactgttttccttggagatggtcagaagttattataaataggatattaaggaatata
||| ||||||||  |||| ||||| || || || || ||||| ||||| |||||||| ||||| || |||||||||||||| ||||| ||||| |||||||| | |  ||||||     |      || |  |  | |  |||   |  | |  | ||        ||   ||||  ||   ||    |||  |   |  || 
TTTAGCTGGTCTGTTACTAGCAGAAACAGAGTTCTCATTGCAGGTTGAGTCAGATATAGCTCCCTATCGTGGTCTTCTGTTAGGACTTTTCTTTATGACGgtgagtactgtgaatataattgcattaagaattatttctttaacactgatatactgctaatgttatgtttcaagt-gttcctaaccttataccatc-atcat-

upper sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA18G46420.1 (Glycine max), 5'ss of exon 19
TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatttgtgaactaggtcttgaaaatagctgatcgataagtt-tactgttttccttggagatg-gtcagaagt---tattataaataggatattaaggaatata-
 ||||||||| ||||||| ||||| |||||||||||||| || |||||||| ||||| |||||||| ||||| ||||| ||||| |||||||| |||||||||  |   |||     | |  ||| |  |  ||| || | || || ||||||  |||   ||| | || |  |   |||| ||||| |    |   |   | |  
-TTGGCTGGTTTACTACTGGCAGAAACTGAATTTTCCTTACAGGTTGAATCTGATATTGCTCCATATCGTGGCCTTCTTTTGGGGCTCTTCTTTATGACGGtaggtgccgaa-----tatcaaaattcacaaatctattaattgtattgttttatttgttcatgtgacaaatatttttattttaaattgcggttatggttgtgttg

upper sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA09G39770.1 (Glycine max), 5'ss of exon 15
TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatttgtgaactaggtcttgaaaatagctgatcgataagtt-tactgttttccttg---gagatggtcagaagttattataaata-ggatattaaggaatata
|||||||||| ||||||| ||||| |||||||||||||| || |||||||| ||||| ||||| || ||||| ||||| ||||| |||||||| |||||||||  |  ||||     | |  ||| |  |  ||  || | || || ||||||  |||   | ||   |      | |||     || || | |   |  || | 
TTTGGCTGGTTTACTACTGGCAGAAACTGAATTTTCCTTACAGGTTGAATCTGATATTGCTCCTTATCGTGGCCTTCTTTTGGGGCTCTTCTTTATGACGgtaggtgctgaa-----tatcaaaattcacaaatttattaattgtattgttttatttgtttgtgacatttttttttaattgcggttatggttgtgttgctatttc

upper sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv15s0046g03390.t01 (Vitis vinifera), 5'ss of exon 10
TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatttgtgaactaggtc---ttgaaaatagctgatcgataagtttactgttttccttggagatggtcagaagttattataaataggatattaaggaatata
|||||||||| | || |||||||| |||||||||||||| || |||||||||||||| |||||||| ||||| ||| | ||||| ||||||||||||||||||  || |  || | | |   |  || | ||    |   | |    |   |      |  |  | ||    | |  ||  || |    | ||  |  | |  
TTTGGCTGGTTTGCTTCTTGCAGAAACTGAATTTTCCTTACAGGTTGAATCAGATATTGCTCCATATCGTGGCCTTTTATTGGGTCTCTTCTTCATGACGgtaggttcttcaccatgccatttccaagagaggcatttatttatccaatcctaacatataaacctcgtttctattccttg-aagttacctgtttggagaga--

upper sequence: AT4G00630.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ07595 (Selaginella moellendorffii), 5'ss of exon 9
TTTGGCTGGTCTACTACTTGCAGAGACTGAATTTTCCTTGCAAGTTGAATCAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatttgtgaactaggtcttgaaaatagctgatcgataagtttactgttttccttggagatggtcagaagttattataaataggatattaaggaatata
| | ||||| || ||  |  |||| || || ||  |  ||||||||||||| ||||| || ||||| || ||||||||  ||||||| ||||| ||||| |||| | ||   ||      | |||| |  |        || | | | | |  | |  | |    |||                                
TCTTGCTGGACTCCTTTTGTCAGAAACCGAGTTCGCTCTGCAAGTTGAATCCGATATTGCACCATATCGGGGTCTTCTTCTGGGACTTTTCTTTATGACAgtaagtggtttcct-----ctaaaaacaa-tatcttccgagctcattatctggcgta-acacctgcag--------------------------------

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|86068174|gb|DR363931.1|DR363931
EST:     CAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACG                         GTGGGCATGTCCATTGATCCAAAACTTCTTCTCGCCAACTTCCCTCTCATA
genomic: CAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatttgtg ... ataaaatcagGTGGGCATGTCCATTGATCCAAAACTTCTTCTCGCCAACTTCCCTCTCATA
EST: gi|86068176|gb|DR363933.1|DR363933
EST:     CAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACG                         GTGGGCATGTCCATTGATCCAAAACTTCTTCTCGCCAACTTCCCTCTCATA
genomic: CAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatttgtg ... ataaaatcagGTGGGCATGTCCATTGATCCAAAACTTCTTCTCGCCAACTTCCCTCTCATA
EST: gi|86068175|gb|DR363932.1|DR363932
EST:     CAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACG                         GTGGGCATGTCCATTGATCCAAAACTTCTTCTCGCCAACTTCCCTCTCATA
genomic: CAGATATCGCTCCATACCGTGGTCTTCTGTTGGGACTCTTCTTCATGACGgtaatttgtg ... ataaaatcagGTGGGCATGTCCATTGATCCAAAACTTCTTCTCGCCAACTTCCCTCTCATA