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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccttgatcctctcatcacatgagcattttagcttattgagcaaggtgtttacttatatagttatagttatgcatgttcatgttgattgtgaatgttgtagGCTTGGGTTGCCTCTGGTTTTCAAGTCAAGTTTCGATAAAGCTAACAGAACTTCATCAAAGTCCTTCCGAGGTCCTGGCATGGCTGAGGGGCTCAAG

Basic information

species Arabidopsis thaliana
transcript AT1G16340.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G16340.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G48370.1 (Glycine max), 3'ss of exon 2
---ccttgatcctctcatcacatgagcattttagcttattgagcaaggtgtttacttatatagttatagttatgcatgttcatgt-tgattgtgaatgttgtagGCTTGGGTTGCCTCTGGTTTTCAAGTCAAGTTTCGATAAAGCTAACAGAACTTCATCAAAGTCCTTCCGAGGTCCTGGCATGGCTGAGGGGCTCAAG-
     |  |   |   ||    |||      | | || | || || | | ||   || |||  ||  || ||  |||| || ||  ||  | ||  | ||  ||  ||||  | ||  |||||||||||||||| || || ||||||||| |||| |||||||| || || || || || || |||||||||||  | ||| 
aagggtcaaagttaaaattg--tgaatgaaatggtttgtaga-catgatattagttt-tatctttgaagcta-acatgatcttgagtgtatatgtgtctttcagaGTTGGAATACCATTGGTTTTCAAGTCAAGCTTTGACAAAGCTAACCGAACATCATCAAAATCATTTCGTGGCCCGGGGATGGCTGAGGGATTGAAGG

upper sequence: AT1G16340.4 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G38010.1 (Glycine max), 3'ss of exon 3
---------------------------------------------ccttgatcctctcatcacatgagcattttagcttat-tgagcaaggtgtttacttatatagtt-atagttatgcatgttcatgt-tgattgtgaatgttgtagGCTTGGGTTGCCTCTGGTTTTCAAGTCAAGTTTCGATAAAGCTAACAGAACTTCATCAAAGTCCTTCCGAGGTCCTGGCATGGCTGAGGGGCTCAAG
                                                | |   |    | |    |     ||||   |    |||| |  |      | |||| || |||| ||  |||| || ||  ||  | ||  | ||  ||  ||||  | ||  |||||||||||||||| || || ||||||||| |||| |||||||| || || || || || || |||| ||||||  | |||
gtatgtaattatctctatttatgattattttttttattaatgggaaaataaatgtgatttgatggaaatccattagaaaaagctagcaggaagaacgggtgtatatttgatagcta-acatgatcttgagtgtatatgtgtcttccagAGTTGGAATACCGTTGGTTTTCAAGTCAAGCTTTGACAAAGCTAACCGAACATCATCAAAATCATTTCGTGGCCCGGGGATGGTTGAGGGATTGAAG
















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|86068066|gb|DR363823.1|DR363823
EST:     GAAGAGCATGTTCTTCGTATGGCTAAAAGCATCAAAGATATTTCGACAAA                         GCTTGGGTTGCCTCTGGTTTTCAAGTCAAGTTTCGATAAAGCTAACAGAAA
genomic: GAAGAGCATGTTCTTCGTATGGCTAAAAGCATCAAAGATATTTCGACAAAgtatgtgtaa ... aatgttgtagGCTTGGGTTGCCTCTGGTTTTCAAGTCAAGTTTCGATAAAGCTAACAGAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttacttatatagttatagttatgcatgttcatgttgattgtgaatgttgtagGCTTGGGTTGCCTCTGGTTTTCAAGTCAAGTTTCGATAAAGCTAACAGAACTTCATCAAAGTCCTTCCGAGGTCCTGGCATGGCTGAGGGGCTCAAG
                                  tgttgat  putative branch site (score: 4)
       ttatatagttatagtt  TA-rich tract