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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatttatcaccaagactgtgaaagcttaagttgcattagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatag

Basic information

species Arabidopsis thaliana
transcript AT1G73670.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g45620.1 (Oryza sativa), 5'ss of exon 2
AAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatttatcaccaagactgtgaaagcttaagttgcattagggtaacattc-tgtttaagtgc---tggtggactcactctta-ctaactctgt--ttcaatag------
 |||||||||||||| ||||||||||||||| | |||||||||||||| || || ||||| || || ||  | ||  | ||  |||| || || ||||| || |   |   ||| | |  |||   | ||    |  ||  | ||  |    ||     |||||  |   |  | |  | | | |||  |   | |||  | |  | |      
CAAGAACATTCTTGCCAATGCTGATTGCAAGGTCAAGATTTGTGACTTCGGCCTTGCTCGAGTGTCCTTCGACGACACTCCGTCCGCGATATTCTGGACGgtaaaagaacaatc-ctagtactagtacagtcagatatgt-tgagaattgtgttagcccttaagcacccatcatagtttgaattttaattcgttttgtggtccttttgtcgtag

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
AAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatttatcaccaagactgtgaaagcttaagttgcattagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatag
 ||||| ||||| || |||||||| |||||| ||||||||||||| ||||| || || || || || || |||||  | ||  | || || || ||||| || || |||||       | | |||  |     || ||   || |   |||| ||     |||   || |   || | |  |    | ||| || |  |||
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgt-agccattt-----tgatattgttgag--caaaattatgtttgttgaacagtc-----aagacttgattttctta-tgatgtagaatcttttgctgtag

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA05G33980.1 (Glycine max), 5'ss of exon 3
AAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagt----catt-tatcaccaag----actgtgaaagct-taagttgcattagggtaacattctgtttaagtgctggtggactcactctta-ctaactctgtttcaatag----------------------------------
||| |||||||||||||| |||||||||||  | || || ||||| ||||| || ||||| || || ||||||||||| ||  | ||||| || ||||||||||||    |||| | | |||| |    || || | |  | | | ||   ||  |       |   ||| ||||        |  | |   | |||  | | |  | | |                                   
AAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACTgtgagtgcaccattgtgtgaccatgttgaacggttacatttatcaattatgttctgacttttatgcttttgagtgggaaattgcaaattgccatctaggtttctccctaaacctgttgctgacttattttatctactttgaataag

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 3
AAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagt----catt-tatcaccaag----actgtgaaagct-taagttgcattaggg----taacattctgtttaag----tgctggtgg--actca---ctcttactaactctgtttcaatag----------------------
||| || ||||||||||| |||||||||||  | || || ||||| ||||| || ||||| || || ||||||||||| ||  | ||||| || ||||||||||||    |||| | | |||| |    ||||| | |  | | | ||   ||  |     |||  || ||  |  |    |||   | |  |   |    |||  ||||  ||||| |                           
AAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACTgtgagtgcaccattgtgtgaccatgttgaactgttacatttatcaattatgttctgacttttaagcttttgagtgggaaattgcaaatagccatctaggtttctccctaaacctgttgctgacttattttatctactatgaataag

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv01s0011g04920.t01 (Vitis vinifera), 5'ss of exon 3
AAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatttatcaccaagactgtgaaagcttaagttgcattagggtaacattctgtttaagtgctggtggactcactcttactaactctgtttcaatag
||| ||||| ||||||||||| || |||||  ||||||||||||| ||||| || ||||| || || ||||||||| ||||  |  |||| |||||||||||   | || |||       |   |||||   | || |   |||| || |       |||||  |  | ||          |  || ||   |||  |   
AAAAAACATCCTTGCTAATGCAGACTGCAAACTGAAGATTTGTGATTTTGGGCTTGCTCGCGTGTCATTTAATGATACCCCATCAACTATCTTTTGGACTgtatat-atctattttttgca--atgaaattatgagct---ttagtgttat------tttaacag--gatgagtctgtaact--tatctacattttgaag-

upper sequence: AT1G73670.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 5'ss of exon 3
AAAGAACATTCTTGCTAATGCTGATTGCAAGTTGAAGATTTGTGACTTTGGTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatttatcaccaagactgtgaaagcttaagttgcattagggta-acattctgtttaagtgct-ggtggactcactcttacta-actctg----tttcaatag-----------------------------------------
||| || |||||||||||||| || |||||||||||||||||||| ||||| || ||||| || || || |||||||| ||  | |||||||| ||||| ||  ||  |   |  ||||     |     | |  | ||||||   | | ||   |     || | ||  ||    |   | |||  | ||| |     |||  | ||                                         
AAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAATGATGCACCATCAGCTATTTTCTGGACAgtatgtagtc--ttgccaaagtactcctgacatttgctgcatttctgcatacggccgagaaaattacttagtctcttttattttatgatactttaaaatttttgaaagctagaaactttaactaatcatatttatttactttttcaaag

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|86072907|gb|DR368664.1|DR368664
EST:     GTCTTGCTCGTGTGTCTTTTAATGATGCCCCTACCGCTATTTTTTGGACT                         GATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTT
genomic: GTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatt ... gtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTT
EST: gi|86072909|gb|DR368666.1|DR368666
EST:     GTCTTGCTCGTGTGTCTTTTAATGATGCCCCTACCGCTATTTTTTGGACT                         GATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTT
genomic: GTCTAGCTCGTGTATCTTTTAATGATGCCCCTACCGCTATTTTTTGGACTgtgagtcatt ... gtttcaatagGATTATGTTGCTACTCGGTGGTACCGTGCCCCTGAACTCTGTGGATCATTT