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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGACTACCATGGCTGTGACTTCTTTCCTCAGCGATGGTTTGATCGCGTTGTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgtcagatttccaaatccatcaaatgtagttttagtttgttttcgctttagcaaggttctgattgtgttctctcaaccaaccaaagcag

Basic information

species Arabidopsis thaliana
transcript AT5G60340.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G60340.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G08350.1 (Glycine max), 5'ss of exon 3
TGGACTACCATGGCTGTGACTTCTTTCCTCAGCGATGGTTTGATCGCGTTGTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgt-cagatttccaaatccatcaaatgtagttttagtttgttttcgctttagcaaggttctgattgtgttctctcaac-caaccaaagcag
||||||||||||||||||| ||||||||  |||| ||||||||| |||| || || |||| ||| || ||| ||||||||||||||||||| |     |||| ||||   |    | |    | ||    || | |||| |    || ||  |  | | | ||| |   || ||     |       |||
TGGACTACCATGGCTGTGATTTCTTTCCCGAGCGTTGGTTTGATTGCGTGGTTGTACTTCAAACTGATAACACCGTTTTGTATGACCGTTTGAGTCGGAGgtacagaagactcgtttctgttattgattattgattttgct---actctattattgatttcattataaactttccctgtatatgtgacag

upper sequence: AT5G60340.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G27430.1 (Glycine max), 5'ss of exon 3
TGGACTACCATGGCTGTGACTTCTTTCCTCAGCGATGGTTTGATCGCGTTGTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgt-cagatttccaaatccatcaaatgtagttttagtttgttttcgctttagcaaggttctgattgtgttctctcaac-caaccaaagcag
||||||||||||||||||| ||||||||| |||| ||||||||| |||| || || |||| ||| || ||| || |||||||||||||||| |  |  |||| | ||   |    |||    | |||   ||   |||| |    || ||  |  | | | ||| |    | ||  |  |       |||
TGGACTACCATGGCTGTGATTTCTTTCCTGAGCGTTGGTTTGATTGCGTGGTTGTACTTCAAACTGATAACACCATTTTGTATGACCGTTTGAGTAGGAGgtacggaagactcgttcctgttattgttcattagttttgat---actctattattggtttcattataaattttccccgtatatgtgacag

upper sequence: AT5G60340.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA10G33100.1 (Glycine max), 5'ss of exon 3
TGGACTACCATGGCTGTGACTTCTTTCCTCAGCGATGGTTTGATCGCGTTGTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgtcag-----atttccaaatccatcaaatgtagttttagtttgttttcgctttagcaaggttctgattgtgttctctcaaccaaccaaagcag-------
|||||||||||||||| |  ||||||||| ||||||||||| || | || || || |||| ||| || ||| || |||||||||| ||||| |  |  ||||  |     | ||  || ||  | |  | ||   || ||||   |   || ||  |  | | | ||| |  |  || |     ||     |        
TGGACTACCATGGCTGCGTTTTCTTTCCTGAGCGATGGTTTAATTGTGTGGTTGTACTTCAAACTGATAACACCATTTTGTATGATCGTTTGAGTAGGAGgtatggaagcacttgtaattctgtta--tttaacgttggttttgctatactctattagtggtttcattatcatagcttactttccccgtatatgtgacag

upper sequence: AT5G60340.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0004g03280.t01 (Vitis vinifera), 5'ss of exon 2
TGGACTACCATGGCTGTGACTTCTTTCCTCAGCGATGGTTTGATCGCGTTGTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgtca-gatttccaaatccatcaaat-gtagttttagtttgttttcgctttagcaaggttctgattgtgttctctcaaccaaccaaagcag-----
||||||||||||| ||||| ||||| ||| |||||||||||||||| || || ||||||| |||||| ||||| || |||||||||||  | |  |  ||||   ||| |       ||    ||  |  | || |||| ||    |  |  ||    ||   ||| | ||    ||         |        
TGGACTACCATGGTTGTGATTTCTTCCCTGAGCGATGGTTTGATCGTGTGGTGGTGCTTCAAACCGACAACTCTGTGTTGTATGACCGCCTGAGTACAAGgtagtgatgtttttgctcagggcatcatcttcttggtttcttcatacccttccacccatcattttg-gctcaaaaaattgtttgttgtgtggcag

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|19877605|gb|AU238436.1|AU238436
EST:     GTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAG                         GGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
genomic: GTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgtcagatttc ... accaaagcagGGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
EST: gi|47829067|gb|CK118751.1|CK118751
EST:     GTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAG                         GGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
genomic: GTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgtcagatttc ... accaaagcagGGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
EST: gi|47827879|gb|CK117563.1|CK117563
EST:     GTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAG                         GGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
genomic: GTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgtcagatttc ... accaaagcagGGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
EST: gi|301503180|gb|HO208720.1|HO208720
EST:     GTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAG                         GGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
genomic: GTCGTGCTTCGAACCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgtcagatttc ... accaaagcagGGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
EST: gi|19798060|gb|AU229622.1|AU229622
EST:     CCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAG                         GGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA
genomic: CCGAGAACTCCGTTTTGTATGACCGTTTAACGAATAGgtcagatttc ... accaaagcagGGGTTATTCAGGAACCAAGCTTAGTAACAACCTTCAATGCGAAATGTATCA