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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgtattgatctttaccctctctccggctgctacctctcatttaaaattagtattatgatcagaataacttggagaccaatttgaaatcagttggatttgtttttccgtgtattatgcacccttttgcagatttcacatatcttatgttgtgattgcttttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT

Basic information

species Arabidopsis thaliana
transcript AT1G28420.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G28420.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA13G30860.1 (Glycine max), 3'ss of exon 8
gtatgttgtattgatctttaccctctctccggctgctacctctcatttaaaattagtattatgatcagaataacttggagaccaatttgaaatcagttggatttgtttttc---cgtgtattatgcacccttt-tgcagatttcacatatcttatgttgtgattgcttttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT
                                                                       |   ||  | |    |||   |   ||  ||||||||||    | |  |||  | |  ||   |  | | |||| |     |    | |  ||   |||||||||||||||||| ||||  | ||| ||||||| |||||  ||||||||||||| || || |||||| | ||||| ||||| ||||||
-----------------------------------------------------------------------agactgaggtcattcttgttgttcttt--atttgttttttaagcttaaattgaggattctgaatttaaagttcaaaagctgtggtctattgttctatttcagGTTTGGAGATTCTTGATTACTTTTGCTGATGTACTTGATTTATGGCCTTTTACTCTTGACGAGTTTGTACAGGCATTTCACGACTAT

upper sequence: AT1G28420.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA07G32180.1 (Glycine max), 3'ss of exon 9
gtatgttgtattgatctttaccctctctccggctgctacctctcatttaaaattagtattatgatcagaataacttggagaccaatttgaaatcagttggatttgtttttccgtgtattatgcacccttttgcagatttcacatatcttatgttgtgattgcttttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT
                                                      ||| || ||     | | | ||      |  |||| | |       |||  ||       |  || || |     ||  || ||| | || | |  |||| |       |||||||||||||||||  ||||    ||| |||||||||| ||  ||||| ||||||| || ||||||||| |||| || ||||||||||||
----------------------------------------------------gcagttttgtggatgtactgattt------ccttttgtactttagataattgcttgaattaaggcttctgaa-----tttaaggtttgaaatctgtactgttcta------tttcagGTTTGGAGATTTTTGATCAACTTTGCTGATGTTCTAGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT

upper sequence: AT1G28420.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA13G24370.1 (Glycine max), 3'ss of exon 8
gtatgttgtattgatctttaccctctctccggctgctacctctcatttaaaattagtattatgatcagaataacttggagaccaatttgaaatcagttggatttgtttttccgtgtattatgcacccttttgcagatttcacatatcttatgttgtgattgctt--ttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT
                                                                 |||  |         ||  ||||    |||  |   || | |  |   || |  ||  |  ||| |  | |||| |  | |   | | |||  | |  |  ||||||||||||||||  | ||    ||| |||||||||| ||  ||||| ||||||| || ||||||||| |||| || ||||||||||||
----------------------------------------------------------------gcagttttgtagatgtactgatttcctttca--tactttagataattgctgga--attaaggcttct--aaatttaaggt-ttgaaagctgtactggtctatttcagGTTTGGAGATTTTTTATTAACTTTGCTGATGTTCTGGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT

upper sequence: AT1G28420.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv10s0003g00290.t01 (Vitis vinifera), 3'ss of exon 8
gtatgttgtattgatctttaccctctctccggctgctacctctcatttaaaattagtattatgatcagaataacttggagaccaatttgaaatcagttggatttgtttttccgtgtattatgcacccttttgcagatttcacatatcttatgttgtgattgcttttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT
                                                        |  |    |||   | | || |  |  | | | |  |    |  | |  | |     | ||  |||     | ||| || ||| |        |   |||  ||  |   ||||| ||||||||  | ||  | ||| | ||||| ||| |  ||||||||||||| || ||||||||| | || |||||||||||||||
--------------------------------------------------------tccttgtctcactgttatttaggtaaaagtgtaattttgtctaaaatcatgt----atatagcatgtctgatcttg-aggtttaagg------acactgt--tttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtattatgcacccttttgcagatttcacatatcttatgttgtgattgcttttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT
                                            ttgcttttc  CT-rich tract
                            atatcttat  TA-rich tract