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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtacaatgtatcaattttatccaggatataactgctggaatgcggatatcatgacatatataaagcttgttaacttcccgtctataatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG

Basic information

species Arabidopsis thaliana
transcript AT5G46210.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 10
gtatgta-caatgtatcaat--tttatccaggatataactgctggaatgcggatatcatgacatatataaagcttgttaacttcccgt-ctataatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG
 ||| || |  | ||  |    |||    || || | |       | |    || |  |  |||| ||     ||  | | |     |  |  | | ||| || |||||||||||||| || |||||||| || || || |||||||| ||||||||||||
ttatataactttataataggcgtttgctgagcatgttaacatgcaacttgatattttctatcataaatgtgcatttctgattaaatatgttgcattgcagCTATTGGCCAACATATCCACCAATGGATGTGAAACTCCCCCATGAACTTAATGTCTATCAG

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA05G27240.1 (Glycine max), 3'ss of exon 10
------------------------------------------------------------gtatgtacaat-gtatcaattttatccaggatataactgctggaatgcggatatcatgacatatataaagcttgt-taacttcccgtctat-aatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG
                                                              |  ||   | || ||  | | |||    ||||   |    |  || |||||  | || | || |   |    | |||||     |  || | | |||| ||||||||||||||||||| ||||||||||  |||||||||||| | ||||| || |||
gtaagctttgtgtcttctcatcatatatatatatgtgtgtgtgtgtgtgtgtgttgatagaaagataggtttgtgtct-tctcatcatatatatgtatatgtgtgtgtggatagaaagatagatttttggagaatctaactggagttggatgagtgcagGCACTGGCCAACATATCCGCCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA15G10030.2 (Glycine max), 3'ss of exon 10
gtatgtacaatgtatcaattttatccaggatataactgctggaatgcggatatcatgacatatataaagcttgtta-acttcccgtctataatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG
   |  ||  ||| |    ||| ||     |   | |  |    | |   | |        |  | || ||  ||  | ||   |  |  | | |||||||||||| |||||||| || ||||||||||  |||||||||||| | ||||| || |||
--gtaaaccgtgttttccctttctcattattgataatttttatgtactattttttctttcca-gtgaatctaattgcaattattggatg-agtgcagGTACTGGCCGACATATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 10
gtatgtacaatgtatcaattttatccaggatataactgctggaatgcggatatcatgacatatataaagcttgttaacttcccgtcta--taatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG
   |   |  ||| ||  | | |||    |||||  ||   |  || |||||  | || | || |   |    |  |  |   ||     || | |||||| |||||||||||||| || || |||||||  |||||||||||| | ||||| || |||
--gtaagctttgtgtct-tctcatcatatatatatgtgt--gtgtgtggatagaaagatagatttctggagaatctaagtggagttggattagtgcagGTATTGGCCAACATATCCCCCCATTGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA13G29010.1 (Glycine max), 3'ss of exon 11
gtatgtacaatgtatcaattttatccaggatataactgctggaatgcggatatcatgacatatataaagcttgtta-acttcccgtctataatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG
   |  ||  ||| |    ||| ||     |   | |  |    |||   | |  |  |  |  | || ||  ||  | ||   |  |    | |||||||||||| || ||||| || ||||||||||  |||||||||||| | ||||| || |||
--gtaaactgtgttttccctttctcattattgataattttcatgtgctacttttttccccca-gtgaatctaattgcaattattggatg-ggtgcagGTACTGGCCGACGTATCCACCCATGGATGTTAGACTTCCTCATGAATTGAATGTTTACCAG

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ14633 (Selaginella moellendorffii), 3'ss of exon 10
gtatgtacaatgtatcaattttatccaggatataactgctggaatgcggatatcatgacatatataaagcttgttaacttcccgtctataatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG
                                         | ||| | | ||||     | | |   |||  || ||  ||   |    |  |||||| ||||| || || |||||||||||| ||   |||||||||||||| ||||||||||||
-----------------------------------------gtatgagcagatcacttggttttt---gctatttgacgcccttgcatgcacgcagGTATTGGCCTACGTACCCGCCTATGGATATTCGTCTTCCTCATGAACTCAATGTCTATCAG

upper sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ26297 (Selaginella moellendorffii), 3'ss of exon 10
gtatgtacaatgtatcaattttatccaggatataactgctggaatgcggatatcatgacatatataaagcttgttaacttcccgtctataatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG
                                            |  ||| |  || || |   |   |||  || ||  ||   |    |  |||||| ||||| || || |||||||||||| ||   |||||||||||||| ||||||||||||
-------------------------------------------gtatggacag-atcacttggtttttgctatttgacgcccttgcatgcacgcagGTATTGGCCTACGTACCCGCCTATGGATATTCGTCTTCCTCATGAACTCAATGTCTATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatgcggatatcatgacatatataaagcttgttaacttcccgtctataatacagGTACTGGCCAACATATCCGCCTATGGATGTTAAGCTTCCTCATGAACTAAATGTCTATCAG
                              tgttaac  putative branch site (score: 2)
                                    cttcccgtct  CT-rich tract
             atgacatatataaa  TA-rich tract