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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGTAAAGTCTTCTATTGTGAACTATGCAGCAAACAGTATAGAACGGTGATGG

Basic information

species Arabidopsis thaliana
transcript AT5G26610.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G26610.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os04g02500.2 (Oryza sativa), 3'ss of exon 3
gtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtctttt----attacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGTAAAGTCTTCTATTGTGAACTATGCAGCAAACAGTATAGAACGGTG-ATGG
                                           |  |   | |        |      |  |  ||  ||  ||||    |||   |  ||||||| | | |  | || |||| ||||  || ||||||||||||||| |||||||||| |||||||| || |  || || || || || || |  || || |||| |||    || || | ||| ||||| | |  || | ||| 
-------------------------------------------gcaagagttgctagcatcagccctcatgatccttgagcattttgggcattttttatttggtggttcttt--ttcctgcttggtgcaaatcatgacaatccagGTCATAGCAGAACGCGAGCAGAAAATACGTAGTGAGGTCAAGGAGATACAGAAGGTGTTCTTTTGCAGTCTCTGTAACAAGCAGTACAAATTGGCGCATG-

upper sequence: AT5G26610.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os04g02500.5 (Oryza sativa), 3'ss of exon 1
gtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaaga--ataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGTAAAGTCTTCTATTGTGAACTATGCAGCAAACAGTATAGAACGGTG-ATGG---------
                                                || | |        | ||   |  |  | |   | | ||| |||  |||| |      ||||  | || |||| ||||  || ||||||||||||||| |||||||||| |||||||| || |  || || || || || || |  || || |||| |||    || || | ||| ||||| | |  || | |||          
-----------------------------------------------ctagcatcagccctcatgatccttgagcattttgggcattttttatttggtgg------ttctttttcctgcttggtgcaaatcatgacaatccaggtcatagcagAACGCGAGCAGAAAATACGTAGTGAGGTCAAGGAGATACAGAAGGTGTTCTTTTGCAGTCTCTGTAACAAGCAGTACAAATTGGCGCATGAATTTGAGTC

upper sequence: AT5G26610.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G41310.1 (Glycine max), 3'ss of exon 4
gtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGTAAAGTCTTCTATTGTGAACTATGCAGCAAACAGTATAGAACGGTGATGG
                                   | |  |     |  | | | |   ||     | ||    ||||||| |||||||||||||| |      |||| ||||| ||||||||| |||||||| ||| |||||| |||| ||||||||||| || || || |  || || ||||||||||| || || ||||||||||| || |||| ||| || || | |  ||  ||||
-----------------------------------cataaggaatcatcaactttggaaggtcttgagaatttcctgcagt-ttttattacctggtgg-----cttcttctgcctgcttcgtgcacattatgaaaattcagGTCTTAGCTGAACGTGAGCAAAAAATTCAAACTGAAGTGAAAGAAATCCGAAAGGTGTTCTATTGTGATCTCTGCAACAAGCAATACAAATTGGCAATGG

upper sequence: AT5G26610.3 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv14s0060g00320.t01 (Vitis vinifera), 3'ss of exon 5
gtatgcgttcaaaacatatttggatatatccttgtcttttgacgggaatatcgtagaggggaaagaataaaaaactgcagtcttttattacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGTAAAGTCTTCTATTGTGAACTATGCAGCAAACAGTATAGAACGGTGATGG
                                                           |   |||||       |||||| |||||||||||||| |      |||||||||| ||||||||| ||||||||||||||||||  ||||||||||||||||||| || ||||  || || |||||||| || || || ||||||||||| || |||| ||| || || | |  ||  ||||
-----------------------------------------------------------gttgagaatttcg---tgcagt-ttttattacctggtgg-----cttctactgcctgcttcgtgcacattatgacaatccagGTGGTAGCAGAACGTGAGCAGAAAATTCAGACAGAGGTGAAAGAAATACGAAAGGTGTTCTATTGTGAGCTCTGCAACAAGCAATACAAACTGGCTATGG

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|163988903|gb|ES030624.1|ES030624
EST:     AACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAG                         GTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGT
genomic: AACTTGATATCGAGATTGAGGAGACTGAGGAAATCGCAAAGAAACGGGAGgtatgcgttc ... gacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attacctggttggtggctttctactgcccgcttcgtgcccattatgacaatccagGTCCTAGCAGAACGTGAGCAGAAGATCCAGAGCGATGTTAAAGAAATCCGTAAAGTCTTCTATTGTGAACTATGCAGCAAACAGTATAGAACGGTGATGG
                                        attatga  TA-rich tract