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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGCTAGTGGGAACACAGTACAAGCCAATGGAAATGGTCAAGTCTGATTGGGTTGCTATTAGGAAATCTCCACCATGGGCCATTGATTCGTGGGGATTAGgtactgtagtttttatgccttactaattctcaatggagattatatgctcctcgacccttagtgcacttgagtgctattctttcactaaagccctttacttccttttttgaag

Basic information

species Arabidopsis thaliana
transcript AT2G40730.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g60440.1 (Oryza sativa), 5'ss of exon 6
TGGCTAGTGGGAACACAGTACAAGCCAATGGAAATGGTCAAGTCTGATTGGGTTGCTATTAGGAAATCTCCACCATGGGCCATTGATTCGTGGGGATTAGgtactgtagtttttatgccttactaattctcaatggagattatatgctc-ctcgacccttagtgcacttgagtgctattctttcactaaagccctttacttccttttttgaag
||| |||| |||||||| || |||||||||||  |    ||||| ||||||||  | ||||||||||| || |||||||| |||||||| |||||| | ||||  | ||   | |  ||||  |  |||         |||| || ||   | ||   ||      |   | |  ||   ||     |  |  |   | |||||| |  ||  
TGGTTAGTTGGAACACAATATAAGCCAATGGAGCTAACAAAGTCAGATTGGGTGTCAATTAGGAAATCACCTCCATGGGCAATTGATTCCTGGGGACTGGgtaa-gcagagctaactcctt-ttccttc---------attacattcttgtttgattgttctgtttccataattttacaattcggaaactgttcaacagttccttgtcgga--

upper sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: AC218972.3_FGT001 (Zea mays), 5'ss of exon 6
TGGCTAGTGGGAACACAGTACAAGCCAATGGAAATGGTCAAGTCTGATTGGGTTGCTATTAGGAAATCTCCACCATGGGCCATTGATTCGTGGGGATTAGgt-actgtagtttttatgccttactaattctcaatggagattatatgctcctcgacccttagtgcacttgagtgctattctttcactaaagccctttacttccttttttgaag
||| |||| |||||||||||||||||||||||  ||   ||||| ||||||| | | ||||| ||||| || ||||||||||||||||| |||||| ||||| |  |||  |   |  | | |    | |||       || | |||||  |      |   || ||||   |  | || ||| | |||||  | || |      |       
TGGTTAGTTGGAACACAGTACAAGCCAATGGAGCTGTCAAAGTCAGATTGGGCTTCAATTAGAAAATCACCCCCATGGGCCATTGATTCTTGGGGACTAGgtgagcgtaaata--actcttaatggttcctcctcatgcatgacatgcttgtta----tggttgtacttatatatttttttttgagtaaagtacatttccggtcct-------

upper sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA20G36180.1 (Glycine max), 5'ss of exon 6
TGGCTAGTGGGAACACAGTACAAGCCAATGGAAATGGTCAAGTCTGATTGGGTTGCTATTAGGAAATCTCCACCATGGGCCATTGATTCGTGGGGATTAGgtactgtagtttttatgccttactaattctcaatggagattatatgctcc-tcgacccttagtgcacttgagtgctattctttcactaaagccctttacttccttttttgaag
||||| || ||| |||| ||||| ||||||||| |||  || ||||| |||| ||| |||| ||| ||||| ||||||||||||||||| |||||  | |||| |||  || | |    |||  || |   ||| || ||  || |     | || |    |  || |    || |||| ||||| |     |  || ||| ||  ||     
TGGCTTGTTGGATCACAATACAAACCAATGGAACTGGCAAAATCTGACTGGGCTGCAATTAAGAAGTCTCCTCCATGGGCCATTGATTCTTGGGGCATGGgta-tgttattctcag---ttataaacttataattgaaatattagggggaatagaacaaaggaacattc---tgttattgtttcagtt---tctcttgcttgctgattgt---

upper sequence: AT2G40730.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 5'ss of exon 6
TGGCTAGTGGGAACACAGTACAAGCCAATGGAAATGGTCAAGTCTGATTGGGTTGCTATTAGGAAATCTCCACCATGGGCCATTGATTCGTGGGGATTAGgtactgtagtttttatgccttactaattctcaatggagattatatgctcctcgaccctta-gtgcacttgagtgctattctttcactaaagccctttacttccttttttgaag
||||| || ||  |||| ||||| ||||||||  || | |||||||| ||||  || || ||||||||||||||||||||||||||||| ||||| || ||||    ||| ||      || |   || |   |  ||   ||  | || | |    |||  |  | | |  |  ||  |  || || |     | | |||||          
TGGCTTGTTGGTTCACAATACAAACCAATGGAGTTGCTAAAGTCTGACTGGGCAGCAATCAGGAAATCTCCACCATGGGCCATTGATTCTTGGGGCTTGGgta----agtcttccactgtttccttttgtaggtatagtagatgcgttcatagtttgttacataaagtggtttaataaacgatctcttac-tattgtgcttcccc--------

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|86065920|gb|DR361677.1|DR361677
EST:     CTATTAGGAAATCTCCACCATGGGCCATTGATTCGTGGGGATTAG                         GATGTCTTATTTATGAACTCTTCTCGGGCTCTAAGCTGGCAAAAACAGAGG
genomic: CTATTAGGAAATCTCCACCATGGGCCATTGATTCGTGGGGATTAGgtactgtagt ... ttttttgaagGATGTCTTATTTATGAACTCTTCTCGGGCTCTAAGCTGGCAAAAACAGAGG