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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgtgttttcacaaccatcaaaattatcatcaaataccacattgtgttgtaacctgagttagcttctgattcgtgtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG

Basic information

species Arabidopsis thaliana
transcript AT2G46860.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os04g59040.1 (Oryza sativa), 3'ss of exon 5
-------gtaactgtgttttcacaaccatcaaaattatcatcaaat-----accacattgtgttgtaacct-gagttag------cttctgattcgtgtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG
        ||  ||    | || ||||||     || | |  | |      |  | ||||||   | | || | | ||       ||| | || |    |||| || ||  |||| || |  ||||||||||||||||| |||||  | |||||||||||||| |||
tagttttttagttgcacct-caaaaccattctcttttttactacagtgtggaatatattgtgccattatctcgtggtaatgtgttcttttaatccacacagGAGCCTGTTATTCCTGGTTCCTTCCTCCGTGCTAGAGCAATTGGCCTTATGCCCATGATTGACCAG

upper sequence: AT2G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G45050.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------------------------------gtaactgtgt--tttcacaaccatcaaaattatcatcaaataccacattgtgttgtaacctgagttagcttctgattcgt----gtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG
                                                                                 || |||||   |  | ||   |  ||||| |     ||||    ||     | |||       |   ||||   | ||     ||||| ||||| ||||| ||||||||||| || || || ||||||||| | ||||||||||||||   |
gtaaattagtaccattttcaaattcatatattttacaagaagcattaaatcctgtttataatattctatagacatgtgtaaaattgtgtaaatgtagaatgttttaaattgttg---aatagacaatgactatttaattaagaattttttctacattgttatgatagGAGCCAGTTCTTCCTGGATGTTTCCTGCGAGCAAGGGCCATTGGACTGATGCCCATGATTGACGGG

upper sequence: AT2G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 5
----------------gtaactgtgttttcacaaccatcaaaattat---catcaaataccacattgtgttgtaacctgagttagcttctgattcgtgtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG
                ||||     ||    |     |   |  |||    |||||  |    ||    | ||||  | | |||  |  |||    ||||||| ||||| ||||| || |||||||| || || || ||||||||||| ||||| |||||||| |||
ataccattttagattagtaataaatttgatgcgtatgtttgagctatatatatcaacaaggttatccattagtaaatttacttaattattgaca-atgtagGAGCCAGTTCTTCCTGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG

upper sequence: AT2G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G01960.1 (Glycine max), 3'ss of exon 3
---------gtaactgtgttttcacaaccatcaaaattatcatcaaatacca-cattgtgttgtaacctgagttagctt-ctgattcgt-------gtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG
                                 | | ||| |||  |||  | ||    | |    | | ||| |  || |||| | ||        ||||| || || |||||||| |||||||| || || || ||||||||||| ||||| |||||||| |||
nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngatagtataatctgataatatcaacaaggttatccattagtaaatttactgaattgttgacatgatagGAGCCTGTTCTTCCCGGTTGTTTCCTGCGAGCCAGGGCCATTGGATTGATGCCTATGATTGACCAG

upper sequence: AT2G46860.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G18510.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------------------gtaactgtgttttcaca-accatcaaaattatcatcaaataccacattgtgttgtaacctgagttagcttctgattcgt----gtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG
                                                                                   || |||||      | |    |  ||  ||  |  ||||    || |   | |||       | | |||||  | ||     ||||| ||||| ||||| ||||||||||| || || || ||||||| | | ||||||||||||||   |
gtaaattagtaccattttcaaattcatatattttacacaagaagcattaaatattgtttataatattctatagacatgtgtaaaattgtgtaaatgtagaatgccttaa--attgttgaataggcaatggctatttaattaagaattgtttctgcattgttttgatagGAGCCAGTTCTTCCTGGATGTTTCCTGCGAGCCAGGGCCATTGTACTGATGCCCATGATTGACGGG

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|19878118|gb|AU238949.1|AU238949
EST:     GGACATTGTGTGAAGACAACGATCCTCTTGATGTCCTTGTCCTTATGCAG                         GAACCAGNGCTTCCCGGATGTTTNCTCCGTGCTAGAGCCATTGGATTAATG
genomic: GGACATTGTGTGAAGACAACGATCCTCTTGATGTCCTTGTCCTTATGCAGgtaactgtgt ... attcgtgtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATG
EST: gi|86073611|gb|DR369368.1|DR369368
EST:     GGACATTGTGTGAAGACAACGATCCTCTTGATGTCCTTGTCCTTATGCAG                         GAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATG
genomic: GGACATTGTGTGAAGACAACGATCCTCTTGATGTCCTTGTCCTTATGCAGgtaactgtgt ... attcgtgtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcatcaaataccacattgtgttgtaacctgagttagcttctgattcgtgtagGAACCAGTGCTTCCCGGATGTTTCCTCCGTGCTAGAGCCATTGGATTAATGCCCATGATTGATCAG
     atcaaata  TA-rich tract