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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaccaaaatctcaatgctctgttccatcttttatttatcttcttttccccggttcacgtcaaccttatcgactttttttccctgtgtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGGAGATACCACAGGAAGTTCAACACTTGGTTTCAGAGACATAAAGAGCCAA

Basic information

species Arabidopsis thaliana
transcript AT5G18230.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G18230.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA19G28580.2 (Glycine max), 3'ss of exon 11
gtaccaaaatctcaatgctctgttccatcttttatttatcttcttttccccggttcacgtcaaccttatcgactttttttccctgtgtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGGAGATACCACAGGAAGTTCAACACTTGGTTTCAGAGACATAAAGAGCCAA
               | | |||  |  ||| | ||| || || || |      ||   ||||    | | | ||| | | |  | | ||| || ||||  | ||||| |||||| | |||||||| ||| | ||||| ||||| |||||||||||| | ||||  ||||||||||||||| | ||| ||||||| |
--------------gtac-ctgaactttctgtgattaatattattgtgtt---tttctgtca----tgtgggcttatatccatttt-tttctgcagAATACTTACCAACAATATTTGGCTGCAAAGGAGTTAAAGAAGCAGTCTTGGAGATACCACCGAAAGTATAACACTTGGTTTCAGCGGCATGAAGAGCCCA

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA16G26850.1 (Glycine max), 3'ss of exon 16
gtaccaaaatctcaatgctctgttccatcttttatttatcttcttttccccggttcacgtcaaccttatcgactttttttccctgtgtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGGAGATACCACAGGAAGTTCAACACTTGGTTTCAGAGACATAAAGAGCCAA
               |     |     |    || | ||   | || | |   |||| || |    | |   |||   |||  | | ||| || ||||| | ||||| || ||| | |||||||||||||| ||||| ||||| |||||||| ||| ||||||  ||||| ||||||||  | ||| |||||||||
--------------gtatgtggacattttggatactgattagcattactctcattca-gtta----tgtaagcttacattcattat-tttctgcagAACACTTACCAACAGTATATGGCTGCAAAAGAGCTAAAGAAGCAGTCTTGGAGATATCACCGGAAGTATAACACATGGTTTCAACGGCATGAAGAGCCAA

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA02G07830.1 (Glycine max), 3'ss of exon 15
gtaccaaaatctcaatgctctgttccatcttttatttatcttcttttccccggttcacgtcaaccttatcgactttttttccctgtgtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGGAGATACCACAGGAAGTTCAACACTTGGTTTCAGAGACATAAAGAGCCAA
               | | | |     |    || | ||     || | |   || | || |    | |   |||   |||  | | ||| || ||||| | ||||| || ||| | |||||||||||||| ||||| ||||| |||||||| ||| ||||||  ||||| ||||||||  | ||| |||||||||
--------------gtacgcagactttttgggtactgattagtattactctcattta-gtta----tgtaagcttacattcattat-tttctgcagAACACTTACCAACAGTATATGGCTGCAAAAGAGCTAAAGAAGCAGTCTTGGAGATATCACCGGAAGTATAACACATGGTTTCAACGGCATGAAGAGCCAA

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA16G04690.1 (Glycine max), 3'ss of exon 15
gtaccaaaatctcaatgctctgttccatcttttatttatcttcttttccccggttcacgtcaaccttatcgactttttttccctgtgtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGGAGATACCACAGGAAGTTCAACACTTGGTTTCAGAGACATAAAGAGCCAA
                 ||    |   ||| | ||| || || || |      ||   ||||    | | | ||| | | |  | | ||| || ||||  | ||||| |||||| | |||||||| ||| | ||||| ||||| |||||||||||| | ||||  ||||| ||||||||| | ||| ||||||| |
-------------gtacctgaactttctctgtgattaatattattgtgtt---tttctgtca----tgtgggcttatatccatttt-tttctgcagAATACTTACCAACAATATTTGGCTGCAAAGGAGTTAAAGAAGCAGTCTTGGAGATACCACCGAAAGTATAACACATGGTTTCAGCGGCATGAAGAGCCCA

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA16G04690.2 (Glycine max), 3'ss of exon 15
gtaccaaaatctcaatgctctgttccatcttttatttatcttcttttccccggttcacgtcaaccttatcgactttttttccctgtgtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGGAGATACCACAGGAAGTTCAACACTTGGTTTCAGAGACATAAAGAGCCAA------------------------------
                 ||    |   ||| | ||| || || || |      ||   ||||    | | | ||| | | |  | | ||| || ||||  | ||||| |||||| | |||||||| ||| | ||||| ||||| |||||||||||| | ||||  ||||| ||||||||| | ||| ||||||| |                              
-------------gtacctgaactttctctgtgattaatattattgtgtt---tttctgtca----tgtgggcttatatccatttt-tttctgcagaatacttaccaacaatatttggctgcaaagGAGTTAAAGAAGCAGTCTTGGAGATACCACCGAAAGTATAACACATGGTTTCAGCGGCATGAAGAGCCCAAAGTTGCAACCGATGAATATGAGCAGGGAA

upper sequence: AT5G18230.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv08s0007g07570.t01 (Vitis vinifera), 3'ss of exon 14
gtaccaaaatctcaatgctctgttcca-tcttttatt-tatcttcttttccccggttcacgtcaaccttatcgactttttttccctgtgtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGGAGATACCACAGGAAGTTCAACACTTGGTTTCAGAGACATAAAGAGCCAA
       | | | |    |||||  || || || ||  | | | |  ||    |||| |  |  | | |||   ||      |  |   ||| |||||||  | || ||||||||| | ||||||||||| || ||||| || || ||||||||||||||||| |  ||||| ||||||||||| ||| | |||||||
-----gtattgttagctttctgtaacaatccttcatagtgtttaccattatgtggtt-atcttgagcatatt--ctcaagcgcattac-tttctgtagAATACTTATCAGCAATATTTGGCTGCAAAAGAACTAAAGAAGCAATCGTGGAGATACCACAGGAAATATAACACATGGTTTCAGAGGCATGAGGAGCCAA

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|125276805|gb|EL290890.1|EL290890
EST:     GCGATGCTTATGGAACCGATACTTTGTTCTTTGCGTTCTACTATCAGCAG                         AACTCATACCAGCAATAT
genomic: GCGATGCTTATGGAACCGATACTTTGTTCTTTGCGTTCTACTATCAGCAGgtaccaaaat ... gtttgtgtagAACTCATACCAGCAATAT
EST: gi|116424314|gb|EG466906.1|EG466906
EST:     GCGATGCTTATGGAACCGATACTTTGTTCTTTGCGTTCTACTATCAGCAG                         AACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGG
genomic: GCGATGCTTATGGAACCGATACTTTGTTCTTTGCGTTCTACTATCAGCAGgtaccaaaat ... gtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGG
EST: gi|116407887|gb|EG450479.1|EG450479
EST:     GCGATGCTTATGGAACCGATACTTTGTTCTTTGCGTTCTACTATCAGCAG                         AACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGG
genomic: GCGATGCTTATGGAACCGATACTTTGTTCTTTGCGTTCTACTATCAGCAGgtaccaaaat ... gtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGG
EST: gi|125026898|gb|EL099167.1|EL099167
EST:     GCGATGCTTATGGAACCGATACTTTGTTCTTTGCGTTCTACTATCAGCAG                         AACTCATACCAGCAATATCTTGCTGCAAAAGAG
genomic: GCGATGCTTATGGAACCGATACTTTGTTCTTTGCGTTCTACTATCAGCAGgtaccaaaat ... gtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttccccggttcacgtcaaccttatcgactttttttccctgtgtttgtgtagAACTCATACCAGCAATATCTTGCTGCAAAAGAGCTGAAGAAACAGTCATGGAGATACCACAGGAAGTTCAACACTTGGTTTCAGAGACATAAAGAGCCAA
                               ctttttttccctgtgt  CT-rich tract
                              acttttttt  TA-rich tract