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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAGGCTCAATCTACTGTAGTGAAGAGCAACTTAAACCCTGTCTGGAATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTGgtaaaagcttggtctaatatttccaaaatcactttctactcttgatgaatcattacagaagtttttcccttacattttatgtttttgcag

Basic information

species Arabidopsis thaliana
transcript AT4G21160.4
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G21160.4 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os02g10480.3 (Oryza sativa), 5'ss of exon 9
AAGGCTCAATCTACTGTAGTGAAGAGCAACTTAAACCCTGTCTGGAATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTGgtaaa-----------agcttggtctaatatttccaaaatc-----actttctactcttgatgaatcattacagaagtttttcccttacattttatgtttttgcag
|| || ||| |  | ||  | ||   |||| | |||||||||||||| || ||||||| |||||||||||||||  | || ||| |  | ||| |||||||           |       | ||   ||| ||||||     |  |  | ||        ||  | | |  || |  |   | ||   | |  |||      
AAAGCGCAAACCTCGGTGATCAAAGCCAACCTGAACCCTGTCTGGAACGAAGAACTCAAGCTCTCTGTTCCTCAGCAATACGGCCCTCTCAAACTGgtaaatcccctcacagaatcacaaccaaaccttcgaaaatcttctaatctgtttcttccatctgatagtcaaaatagctaattgttcaccactgaaattt------

upper sequence: AT4G21160.4 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA05G29940.1 (Glycine max), 5'ss of exon 6
AAGGCTCAATCTACTGTAGTGAAGAGCAACTTAAACCCTGTCTGGAATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTGgtaaa----agcttggtctaatat--ttccaaaatcactttctactct-tgatgaatcattacagaagttttt-------cccttacattttatgtttttgcag
|  | |||  | |||||| | ||||| || || || || ||||||||||||||||| ||||| |||||||||||  | | |||   | |||| |||||||     |  ||  |||  | |  ||  |||||        | ||| |||||  |  ||   |    || |        | | | || | ||  ||||    
ACTGTTCAGACAACTGTAATAAAGAGTAATTTGAATCCAGTCTGGAATGAGGAACTTATGCTGTCTGTTCCTCAGCAATTTGGAATATTGAATTTGgtaaggttcaatttcatcttgtcttgttagaaaatggaaacaaattctgtgatgcttatttggtggtacttctatttggatcttcatatgtgatactttt----

upper sequence: AT4G21160.4 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G13070.1 (Glycine max), 5'ss of exon 6
AAGGCTCAATCTACTGTAGTGAAGAGCAACTTAAACCCTGTCTGGAATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTGgtaaa----agcttggtctaatatt--tccaaaatcactttctactct-tgatg---aatcattacagaagttttt---cccttacattttatgtttttgcag-----------------------------------------------------------------------------------------------
|  | |||  | |||||| | ||||| || || || || ||||||||||||||||| ||||| |||||||||||  | | |||   | |||| |||||||     |  ||  |||  ||||  |  |||||        | ||| |||||   | ||  |       | |||    | | |  | | ||  || |                                                                                                   
ACTGTTCAGACAACTGTAATAAAGAGTAATTTGAATCCAGTCTGGAATGAGGAACTTATGCTGTCTGTTCCTCAGCAATTTGGAATATTGAATTTGgtaagattgaatttcatcttgtattgttagaaaatggaaacaaattctgtgatgcttattcggtgtttggatatttggatcttcatgtgtgatacttctatttgtctgtatgtgtgttttggtacagaagatacaaaattgatttctggtgtaaaaacatgtaattttatcctaactgctggttacattgcattgcag

upper sequence: AT4G21160.4 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA09G02830.1 (Glycine max), 5'ss of exon 8
AAGGCTCAATCTACTGTAGTGAAGAGCAACTTAAACCCTGTCTGGAATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTGgtaaaagcttggtctaatatttccaaaatcactttcta-ctcttgatgaatcattacagaagtttttcccttacattttatgtttttgcag-------------
|  |  ||  | ||| || | | ||||||||| || || |||||||||||||||  |||||| ||||||||| |  | |||||     | |||||||||  |  |   | |  | || | |||| ||    ||| ||  || |  || || | |||      ||  | | |    |         |              
ACTGTCCAGACAACTATAATAAGGAGCAACTTGAATCCAGTCTGGAATGAGGAATACATGCTGTCTGTTCCTGAGCATTATGGACAGATAAAATTGgtatga-ttgaattt--tgttgcgaaaaacagacactatcttctgttctattat-atagagacacatcattgaaagaaaagaaaaaaaaaagagttcctccatc

upper sequence: AT4G21160.4 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv10s0003g04900.t01 (Vitis vinifera), 5'ss of exon 8
AAGGCTCAATCTACTGTAGTGAAGAGCAACTTAAACCCTGTCTGGAATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTGgtaaaagcttggtctaatatttcc---------aaaatcactttctactcttgatgaatcattacagaagtttttcccttacattttatgtttttgcag-
|  |  ||  |    ||| | | ||||||||| || || ||||||||||||||||||||||| ||||| ||     | |||||  |  | ||| |||||     ||  | |    |||||         |       | | |  | | | | | |    |  |||  |   |  ||  ||  | | ||        
ACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTGgtatgtttttctttttccttttcccttgattgtatggcttttcttttgtgtggttcagttgccatggaaaatgaccttttctatggtttattgggatgac

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|86075296|gb|DR371053.1|DR371053
EST:     ATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTG                         CAAGTGTTTGACTATGACACATTTTCTGCTGATGACATAATGGGAGAAGCT
genomic: ATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTGgtaaaagctt ... gtttttgcagCAAGTGTTTGACTATGACACATTTTCTGCTGATGACATAATGGGAGAAGCT