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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcttactatttttaattacttttagaaaatcttgcttgctgctcattgaatcattccccatgaagaaatataacctacgtatacttgtgttctgcagAGGTCTGGTTGGGTACAGATGTGTGTTTAGCAGCGACACACGAGGAACTGGATTCATGCATCGTGCTTTCCTAA

Basic information

species Arabidopsis thaliana
transcript AT2G31060.3
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G31060.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA06G43820.1 (Glycine max), 3'ss of exon 12
gttagcttactatttttaattacttttagaaaatcttgcttgctgctcattgaatcattccccatg-aagaaatata--acctacgtatacttgtgttctgcagAGGTCTGGTTGGGTACAGATGTGTGTTTAGCAGCGACACACGAGGAACTGGATTCATGCATCGTGCTTTCCTAA
 | |  | | |    ||| | |||||   |  ||  | || |       |    | ||     ||| ||| ||| ||  | || | |  |      || | ||| || ||||||||||||||  ||||||| ||||| |||||||| ||||||||||||||||||||||||||||   
-tca--tcaatggagtta-taactttggcattatggttctagtgaaatctgatcttatgaaggatgcaaggaatttagtaacttcattaatgctgtttgttcagGGGCCTGGTTGGGTACAGGAGTGTGTTCAGCAGTGACACACGTGGAACTGGATTCATGCATCGTGCTTTCCATG

upper sequence: AT2G31060.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA12G14080.1 (Glycine max), 3'ss of exon 12
gttagcttactatttttaattacttttagaaaatcttgcttgctgctcattgaatcattccccatg-aagaaat---ataacctacgtatacttgtgttctgcagAGGTCTGGTTGGGTACAGATGTGTGTTTAGCAGCGACACACGAGGAACTGGATTCATGCATCGTGCTTTCCTAA
   | |  |  |  | ||||| ||||   |  ||  | || |       |    | ||    |||| ||| |||    |||| | | ||    ||| || | ||| || ||||||||||||||  | ||||| ||||| |||||||| ||||||||||||||||||||||||||||   
---atcccag-agatataatttctttggcattatggttctagtgaaatctgatcttatgaagcatgcaaggaatttagtaacttccttaatgctgt-ttgttcagGGGGCTGGTTGGGTACAGGAGCGTGTTCAGCAGTGACACACGTGGAACTGGATTCATGCATCGTGCTTTCCATG

upper sequence: AT2G31060.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv12s0028g02640.t01 (Vitis vinifera), 3'ss of exon 12
gttagcttactatttttaattacttttagaaaatcttgcttgctgctcattgaatcattccccatgaagaaatataacctacgtatacttgtgttctgcagAGGTCTGGTTGGGTACAGATGTGTGTTTAGCAGCGACACACGAGGAACTGGATTCATGCATCGTGCTTTCCTAA
 | || || || |  ||| | |    ||  | ||||   || |||   ||   | | | |||    |  ||  ||||  |   | | |   |    | ||| || |||||||| |||||  ||||||||||||| |||||||| || |||||||| ||||||||||||||| |||
ttcagttttct-tgcttagtgatgaatattatatctattttactggatatatgaacttccccagatagtaaggataatttttcttttcggtttactttcagGGGCCTGGTTGGTTACAGGAGTGTGTTTAGCAGTGACACACGTGGCACTGGATTTATGCATCGTGCTTTCTTAA

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|125252578|gb|EL266663.1|EL266663
EST:     GTCCCTGGAAATGAGGGTAGGACGAGACTGTCACTAACTTGTCCTTCAAG                         AGGTCTGGTTGGG
genomic: GTCCCTGGAAATGAGGGTAGGACGAGACTGTCACTAACTTGTCCTTCAAGgttagcttac ... tgttctgcagAGGTCTGGTTGGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattgaatcattccccatgaagaaatataacctacgtatacttgtgttctgcagAGGTCTGGTTGGGTACAGATGTGTGTTTAGCAGCGACACACGAGGAACTGGATTCATGCATCGTGCTTTCCTAA
                         atataac  putative branch site (score: 3)
                 atgaagaaatataa  TA-rich tract