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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaatgcaatcttcctttgctcttctgtccttttctttttcactagttttgattcaaatgaatttttatctctttctcagGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG

Basic information

species Arabidopsis thaliana
transcript AT2G47510.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 11
gtatgaatgcaatcttcctttgctcttctgtccttttctttttcactagttttgattcaaatgaatttt---tatctctttct--cagGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG
||| || || | |     ||   | ||      | |   ||  |||| ||  |       ||   ||||   ||  ||  |||  ||||| || || || ||||| ||||||||||||||||| ||||||||||| |||
gtaagactgta-ttgcatttgattgtttcagtttctcaattagcact-gtgctatcaagcattggttttaactacttccatcttacagGGAAAAGTTAACCCTACCCAGTGTGAGGCCTTGACCATGGTTTGTGCTCAG

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 11
gtatgaatgcaatcttcctttgctcttctgtccttttctttttcactagttttgattcaaat----gaatttttatctc--------tttctcagGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG
||| | |  |  |  |  | |  |  | ||   |||   | || |  |            ||     |  || | | ||         || ||||||||| || ||||| || |||||||||||  |||| |||||||||||||||
gtaagcagactgttattatatcatgatatggtttttgtatgttgatcaacggaagacagcattgtgaagcttctgtttcaacttgtacttttcagGGGAAAGTTAATCCAACCCAGTGTGAGGCTCTGACAATGGTTTGTGCACAG

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 11
------------------------------------------------gtatgaatgcaatcttcctttgctcttctgtccttttctttttcactagt--tttgattcaaatgaatttttat-ctctttctcagGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG
                                                || |   ||  |  | |  | | || |   |   ||| | || || | |   ||||| || ||   |    | |  ||| | |||||||||||| || ||||| ||||||||||| ||||| ||||| ||||| |||
gtaagatcctcatgctgactgaatataaatttgttacacaaaccagctgttttcttgtcacttgctatagttcattaatttatttgtcttgcaattggaatttgactctaagccacaactgtattctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA10G02040.1 (Glycine max), 3'ss of exon 11
------------------------------------------------gtatgaatgcaatcttcctttgctcttctgtcct-tttctttttcact---agttttgattcaaatgaatttttatctctttctcagGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG
                                                || |   |     ||| || |  |    |||  | ||| | || || |   | |||   |  ||    |  | ||| ||| | |||||||||||| || ||||| ||||||||||| ||||| ||||| ||||| |||
gtaagatcctcatgctgactgaatttaaatttgttacacaaaccagttgttttcttttttacttgctatagttcattgttttatttttgttacaattggaatttgactctaagcacaactgtat-tctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA02G01930.1 (Glycine max), 3'ss of exon 11
--------------------gtatgaatgcaatcttcctttgctcttctgtccttttctttttcactagttttgattcaaatgaatttttatctctttctcagGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG
                     || | ||    |   |     ||  | ||| | || |  ||  |   ||||   |  ||   |     |   ||| | |||||||||||| || || || ||||||||||| ||||| ||||| |||||||||
accaatcatttatatttttactagggataagttagacaacaccttctatgtgccttacaattgga---gtttgactctaagccacaaccttattctgtttcagGGGAAGGTTAACCCGACCCAGTGTGAGGCTTTGACGATGGTGTGTGCACAG

upper sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv14s0060g01700.t01 (Vitis vinifera), 3'ss of exon 9
-------------------------------gtatgaatgcaatcttcctttg-ctcttctgtccttttctttttcactagttttga--ttcaaatgaatttttatctctttctc-agGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG
                               ||     |  ||| | |  ||| |         |||||  | || | || | | |   || |  |  || | || ||  |  || |||| ||||| ||||| ||||||||||||||  |||||||||| ||||| |||
gtgagttctttacctaaaaccattcttttttgttcatttctaatttcctgttgacaaagaaaggctttttatatttaatattctgggagttaattttcatgtatagcttctattcgagGGAAAGGTCAATCCAACACAGTGTGAGGCTCTGACTATGGTCTGTGCTCAG

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|124991783|gb|EL064052.1|EL064052
EST:     TTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCT                         GGGAAGGTGAATCCTACACAGTGTGAGGCC
genomic: TTGGTGAACTTGTACTACCTGAAAATGAGCCAGGAAGCAGTATCATGCCTgtatgaatgc ... tctttctcagGGGAAGGTAAATCCTACACAGTGTGAGGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtccttttctttttcactagttttgattcaaatgaatttttatctctttctcagGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG
                     ttttgat  putative branch site (score: 4)
                                     tttttatctctttctc  putative PPT
                     ttttgattcaaatgaa  TA-rich tract