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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTGTCAACCTTCTTGGTTACTGTGAAGAAGAAGAACCTTTCACTAGGATCTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaacaaagctctttagtcatatgagtcattattacactgtaagttgtcagattaaaagtgggaaaacaatatttacttttgctgcag

Basic information

species Arabidopsis thaliana
transcript AT3G56050.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G56050.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os05g39410.1 (Oryza sativa), 5'ss of exon 8
TTTGTCAACCTTCTTGGTTACTGTGAAGAAGAAGAACCTTTCACTAGGATCTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaacaaagctctttagtcatatgagtcattattacactgtaagttgtcagattaaaag---tgggaaaacaatatt----tacttttgctgcag
||  | |||||| | |||||||||||||| |||||||| |||||| ||||  |||| ||||| ||||  ||||| |||||| | |||||||| || ||  ||||| ||        ||||||  | | | || |     ||   | |||      || |  ||   |     | ||  |||     | | ||| |||||
TTAATGAACCTTGTGGGTTACTGTGAAGATGAAGAACCATTCACTCGGATGATGGTGTTTGAGTATGTTTCAAATGGAACACTGTTTGAACACTTGCATGgtaagaaaacttcacatttagtt-tgttattcttcgcaccaagatcagtcacgctatcagcagctattcatgatcaccattaaaacattgttgttgcag

upper sequence: AT3G56050.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G43150.1 (Glycine max), 5'ss of exon 9
TTTGTCAACCTTCTTGGTTACTGTGAAGAAGAAGAACCTTTCACTAGGATCTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaacaaagctctttagtcatatgagt-cattattacactgtaagttgtcagattaaaagtgggaaaacaatatttactttt-gctgcag--------
|||||||| ||| |||| |||||||||||||| || |||||||| ||  | ||||| |||||||||||  ||||||||||| | ||||| ||||||||| |||||||    | |  |||||    || | | || ||  |      | | |  ||    |    |   |  | |   |  | | || |||| |         
TTTGTCAATCTTATTGGATACTGTGAAGAAGAGGATCCTTTCACCAGAGTGTTGGTTTTTGAATATGCCCCAAACGGAACACTATTTGAGCATTTACACAgtaagtactgtatcattttagagtaattactgcacta--aggagaaaggctaacaacacactctttctagcatatggtcaattattagctgaaatttattga

upper sequence: AT3G56050.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA14G06230.1 (Glycine max), 5'ss of exon 8
TTTGTCAACCTTCTTGGTTACTGTGAAGAAGAAGAACCTTTCACTAGGATCTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaacaaagctctttagtcatatgagtcattattacactgtaagttgtcagattaaaagtgggaaaacaatatttacttttg-ctgcag--------
||||| || ||| |||| |||||||||||||| || |||||||| || || ||||| |||||||||||  ||||||||||| | ||||| ||| ||||| ||||||||   | |  |||||   ||      |   | |      | | |  ||    |    |   |  | | | |  | | ||| | | |         
TTTGTGAATCTTATTGGATACTGTGAAGAAGAGGAGCCTTTCACCAGAATGTTGGTTTTTGAATATGCCCCAAACGGAACACTATTTGAGCATCTACACAgtaagtaatgtatcattttaga-gtaactactacattaaggagaaatgctaacaacacactttttctagcatactgtcaattattggccgaaatttgttga

upper sequence: AT3G56050.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA11G35570.1 (Glycine max), 5'ss of exon 7
TTTGTCAACCTTCTTGGTTACTGTGAAGAAGAAGAACCTTTCACTAGGATCTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaacaaagctctttagtcatatgagtcattattacactgtaagttg-tca--gattaaaagtgggaaaacaatatttacttttgctgcag-------------
||||| || ||||||||  | ||||||||||| || |||||||| || ||  |||| ||||| |||||  |||| |||||| ||||||| ||||||||| || |||| | |  |  ||| ||       || |||||||||  | || |   |||  |||| |   |     | |  ||||||   |                     
TTTGTAAATCTTCTTGGACATTGTGAAGAAGATGAGCCTTTCACCAGAATGGTGGTTTTTGAGTATGCCCCAAATGGAACACTCTTTGAGCATTTACACAgtgagtacctat-cattttggt-------gttattattacatagaaaataaatcaatgattgagtatcctgtatccctatttatgatcatcaacttttaatttgttgg

upper sequence: AT3G56050.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv13s0067g01550.t01 (Vitis vinifera), 5'ss of exon 8
TTTGTCAACCTTCTTGGTTACTGTGAAGAAGAAGAACCTTTCACTAGGATCTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaacaaagctctttagtcatatgagtcattattacactgtaagttgtcagattaaaagtgggaaaacaat-----atttacttttgctgcag-----
|||||||||||||| || || ||||||||||| ||||||||||| || ||  |||| |||||||||||  | || |||||  | ||||| ||||||||  ||||| | ||||    |||  | ||     || | |    ||| ||| || |  | | ||||   ||| |  | |     | ||||| |   | |||     
TTTGTCAACCTTCTCGGATATTGTGAAGAAGAGGAACCTTTCACCAGAATGATGGTTTTTGAATATGCTCCGAATGGAACGCTTTTTGAGCATTTACATAgtaagcatcaaattctttttcttatcattttcttaaaaggactttaatttat--ggtcaaaatcaggatataacttggcaagttactctatattcagttgat

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|124874161|gb|EH955806.1|EH955806
EST:     CTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACT                         ATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAATAGCAATGG
genomic: CTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaaca ... tttgctgcagATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAATAGCAATGG
EST: gi|86054312|gb|DR350069.1|DR350069
EST:     CTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACT                         ATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAATAGCCATGG
genomic: CTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaaca ... tttgctgcagATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAATAGCAATGG
EST: gi|124743861|gb|EH835023.1|EH835023
EST:     GGAACAGTCTTTGAACATTTACACT                         ATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAATAGCAATGG
genomic: GGAACAGTCTTTGAACATTTACACTgtaagtaaca ... tttgctgcagATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAATAGCAATGG
EST: gi|86054311|gb|DR350068.1|DR350068
EST:     CTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACT                         ATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAATAGCCATGG
genomic: CTTGGTCTTTGAATATGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaaca ... tttgctgcagATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAATAGCAATGG
EST: gi|125164438|gb|EL191135.1|EL191135
EST:     TTGGTCTTTGAATATTGCATCAAACGGAACAGTCTTTGAACATTTACACT                         ATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAA
genomic: TTGGTCTTTGAATA-TGCATCAAACGGAACAGTCTTTGAACATTTACACTgtaagtaaca ... tttgctgcagATAAAGAATCAGAACACTTGGACTGGGTAATGCGGCTAAGAA