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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTATACTTGGACTGGAACCTGGAGTTACAGATTCAGAAATAAAGAAAGCATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtcaagtttttccccttgttattttttttttcccttttgatcattacggaattatggttgcagcttttgatcctgatagttttttcttctatgcgcatttgttgatctctacag

Basic information

species Arabidopsis thaliana
transcript AT1G79940.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os04g24180.1 (Oryza sativa), 5'ss of exon 4
AGTATACTTGGACTGGAACCTGGAGTTACAGATTCAGAAATAAAGAAAGCATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtcaagtttttccccttgttattttttttttcccttttgatcattacggaattatggttgcagcttttgatcctgatagttttttcttctatgcgcatttgttgatctctacag
|| || |||||||||||||| || |   |||| || || || |||||| ||||  | || || || || ||||||||||||||||||||||| ||||| ||| |||||| || |       ||||  |  ||  |  || | | || | |||  | | ||  |||| | ||    ||  ||||||  | |     | ||    |          
AGCATTCTTGGACTGGAACCAGGTGCATCAGAGTCTGATATCAAGAAATCATACCGTAGACTTTCTATCCAATACCATCCTGATAAAAATCCTGATCCTGgtaaagtttgtctc---acatttttgataatcaatggtgctaaataagaaat-gtagctg-ggcttattatt---attatttttttgttttgaaactttcccag----------

upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G167868_T01 (Zea mays), 5'ss of exon 3
AGTATACTTGGACTGGAACCTGGAGTTACAGATTCAGAAATAAAGAAAGCATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtcaagtttttccccttgttattttttttttcccttttgatcattacggaattatggttgcagcttttgatcctgatagttttttcttctatgcgcatttgttgatctctacag
||||| |||||||||||| |||| |   | || || || || |||||| ||||||| ||||| || ||||| |||||||||||||||||||| |||||||||     ||||     |   ||| |  |  | |  ||  || |  |   || |||   |  | ||  ||| |      | ||| ||| |      ||                 
AGTATTCTTGGACTGGAATCTGGGGCATCTGAATCTGATATCAAGAAATCATATAGGAGGCTTTCTATTCAGTACCATCCTGATAAAAATCCTGATCCAGgtacctcttttg----taacattataataattctgttcaatgaagaaaaaaatatatct-tacctggtgaacacttatgatttctctcccgcctacacag--------------

upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G007871_T02 (Zea mays), 5'ss of exon 3
AGTATACTTGGACTGGAACCTGGAGTTACAGATTCAGAAATAAAGAAAGCATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtcaagtttttccccttgttattttttttttcccttttgatcattacggaattatggttgcagcttttgatcctgatagttttttcttctatgcgcatttgttgatctctacag
||||| |||||||||||| |||| |   | || || || || |||||| ||||||| || || || ||||| |||||||||||||||||||| |||||||||          |  |||| |   | |  |    | || ||  || |  ||| | |     |  | |    |||| |    | |||||          |     |  |   |||
AGTATTCTTGGACTGGAAGCTGGGGCATCTGAATCTGATATCAAGAAATCATATAGGAGACTTTCTATTCAGTACCATCCTGATAAAAATCCTGATCCAGgta------cctcatttgtaacactataataaattattaat-gttgctcaatgaagaaaaaatatatcttacctggtgaactcttcttacgccttttctcccacacatacccag

upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA15G20400.1 (Glycine max), 5'ss of exon 4
AGTATACTTGGACTGGAACCTGGAGTTACAGATTCAGAAATAAAGAAAGCATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtc-aagtttttccccttgttattttttttttcccttttgat-cattacggaattatggttgcagcttttgatcctgatagttttttcttctatgcgcatttgttgatctctacag------
| ||| || ||| | || |||||||   | || || ||||||||||||   ||||| || || || |||||||||||||| ||||||||||| |||||||||  ||| | || |  |||||   |||| ||    ||   || ||       ||  | |  | |   |  | | |  | | ||   | |   |     || | || ||  ||          
AATATTCTAGGATTAGAGCCTGGAGCGGCTGAGTCTGAAATAAAGAAAAAGTATAGGAGACTTTCTATTCAATACCATCCAGATAAAAATCCGGATCCAGgttgaaggtgtttcagttgtttagttttcttattgttgcaatgcaaattttgatgtttgcaggaatgtcggcttcctacaattgcctatgtaactgatatattttcattccttttattttag

upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G08830.1 (Glycine max), 5'ss of exon 4
AGTATACTTGGACTGGAACCTGGAGTTACAGATTCAGAAATAAAGAAAGCATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtc-aagtttttccccttgttattttttttttcccttttgatcattacggaatt--atggttgcag---cttttgatcctgatagttttttcttcta-tgcgcatttgttgatctctacag------------
| ||| || ||| | || |||||||   |||| || ||||||||||||   |||||  | || || |||||||||||||| |||||||| ||||||||||||  ||| | || |  ||||| | ||||||||   | |||  || | |  | ||  ||| ||||||     || ||| |  | | ||   | |   | |||  | |  |  || | ||               
AATATTCTAGGATTAGAGCCTGGAGCGGCAGAGTCTGAAATAAAGAAAAAGTATAGGCGACTTTCTATTCAATACCATCCAGATAAAAACCCAGATCCAGgttgaaggtgtttcagttgtt-tatttttttttattgttg--caatgcaaactttgatgtttgcaggaatgttggattcctacaattgcctatgtaactgctaactgatatatttttattccttttattttag

upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA09G08830.2 (Glycine max), 5'ss of exon 4
AGTATACTTGGACTGGAACCTGGAGTTACAGATTCAGAAATAAAGAAAGCATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtc-aagtttttccccttgttattttttttttcccttttgatcattacggaatt--atggttgcagcttttgatcctgatagttttttcttctatgcgcatttgttgatctctacag
| ||| || ||| | || |||||||   |||| || ||||||||||||   |||||  | || || |||||||||||||| |||||||| ||||||||||||  ||| | || |  ||||| | ||||||||   | |||  || | |  | ||  ||| ||||||      ||  ||      |    ||   |  | |  || |           
AATATTCTAGGATTAGAGCCTGGAGCGGCAGAGTCTGAAATAAAGAAAAAGTATAGGCGACTTTCTATTCAATACCATCCAGATAAAAACCCAGATCCAGgttgaaggtgtttcagttgtt-tatttttttttattgttg--caatgcaaactttgatgtttgcagg----aatgttggattcctacaattgcctatgtaactgcta----------

upper sequence: AT1G79940.3 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv16s0050g01460.t01 (Vitis vinifera), 5'ss of exon 3
AGTATACTTGGACTGGAACCTGGAGTTACAGATTCAGAAATAAAGAAAGCATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtcaagttttt---ccccttgttattttttttttccc--ttttgatc--attacggaattatggttgcagcttttgatcctgata-gtttttt-----cttctatgcgcatttgttgatctctacag-----------------
|| || |||||| | ||| |||||| | ||||||||||||||||||| ||||| || || || ||||||||||||||||||||||||||||| |||||||||  || || |    |    |||| | | | || |    ||||  |   |||  | || ||  |   |  |||||||  |   |  ||||  |      |||| |  |||||| || || | |                     
AGCATTCTTGGATTAGAATCTGGAGCTTCAGATTCAGAAATAAAGAAGGCATACAGGAGACTCTCGATTCAATACCATCCTGATAAAAATCCGGATCCAGgttgaggttctagttcttcagttaatatgtgttccttagttttactttgatttagcaagtactgcgtcttcttttgaatcatctgtgtttactatcaatttctttttgcatttatttatttatctttttttttttgttttccag

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|116415762|gb|EG458354.1|EG458354
EST:     ATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAG                         AAGCCAATAAATATTTTGTGGAGTTCATATCTAAAGCATACCAGGCTTTGA
genomic: ATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtcaagtttt ... atctctacagAAGCCAATAAATATTTTGTGGAGTTCATATCTAAAGCATACCAGGCTTTGA
EST: gi|116473043|gb|EG515635.1|EG515635
EST:     ATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAG                         AAGCCAATAAATATTTTGTGGAGTTCATATCTAAAGCATACCAGGCTTTGA
genomic: ATATAGAAGGCTGTCGATTCAATACCATCCTGATAAAAATCCAGATCCAGgtcaagtttt ... atctctacagAAGCCAATAAATATTTTGTGGAGTTCATATCTAAAGCATACCAGGCTTTGA
EST: gi|164216306|gb|ES162835.1|ES162835
EST:     CCATCCTGATAAAAATCCAGATCCAG                         AAGCCAATAAATATTTTGTGGAGTTCATATCTAAAGCATACCAGGCTTTGA
genomic: CCATCCTGATAAAAATCCAGATCCAGgtcaagtttt ... atctctacagAAGCCAATAAATATTTTGTGGAGTTCATATCTAAAGCATACCAGGCTTTGA