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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtggtcccactgtcaaagttatgttatattgtttcttcccatgtagtcttggtttcaagtactcattatgagggcctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTCGCAGACTATGTCTCTATATGGCCAAACAAGTTTCAAAACAAGACTAATG

Basic information

species Arabidopsis thaliana
transcript AT3G46970.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 9
--gtaagtggtcccactgtcaa---agttatgtta-tattgttt--cttcccatgtagtcttggtttcaagtactcat---tatgagggcctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTCGCAGACTATGTCTCTATATGGCCAAACAAGTTTCAAAACAAGACTAATG
   || |    |||||| |      |  ||||| |  ||| |||   ||| ||| ||   |  |      ||||| |    |        || |   ||||||||||| || ||| ||||||||||  | || |||||||  ||| | || ||||||||| ||||||||||||| ||||| ||||| ||||| || ||||
caatatggatccccactatttttttaagtatgtcaacattatttgctttctcatataagttgaggaggtcgtactgaagtgtgctgaattctctccacagGTGAATGGAGTGGCTGAGTTACACAGCAACATTTTGAAGGAAGAGCTTTTTGCAGACTATCTCTCTATATGGCCCAACAAATTTCAGAACAAAACAAATG

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G085577_T01 (Zea mays), 3'ss of exon 9
------gtaag--tggtcccactgt---caaagttatgttatattgtt--tcttcccatgtagtcttggtttcaagtactcattatgagggcctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTCGCAGACTATGTCTCTATATGGCCAAACAAGTTTCAAAACAAGACTAATG
      ||  |  |     || |||   | ||||  |  |  ||| |   | |||   ||   | ||   | |     |  |||   |     || |  ||||||||||| || ||| |||| || ||  | || ||||||   ||  |||| ||||| ||||||||||||||||| | ||| || |||||||| |||||||
gaaattgttggcataacttcaatgtactccaagtagttctggattctccattttctactgctatattatgtcctgaagcgtattc--aaaattttctgacagGTGAATGGAGTGGCTGAGTTGCATAGCAACATTTTGAAGCAAGAACTATTTGCAGATTATGTCTCTATATGGCCTACCAAATTCCAAAACAAAACTAATG

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 10
--------------------gtaagtggtcccactgtcaaagttatgttatattg-tttcttcccatgtagtcttggtttcaagtactcattatgagggcctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTCGCAGACTATGTCTCTATATGGCCAAACAAGTTTCAAAACAAGACTAATG
                         |   ||  ||||  | ||| ||| | |||| ||||     || || | ||   |    || |  ||         || |||| |||||||||| ||||||||||||||||||||||| || ||| | || ||||| ||| | ||||| || ||||||||||  ||||| ||||| || || ||||
caaatattaattttaatttttcctataacccttctgtttatgtt-tgtgaaattgatttcaattgatttatttttacctcttggtgcctat---------ctctttgtagGTGAATGGTGTTGCTCAGTTACACAGTGATATATTAAAGTCAGAATTATTTGCAAATTATGTTTCAATATGGCCAACAAAGTTCCAAAATAAAACCAATG

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA18G07480.1 (Glycine max), 3'ss of exon 9
-------gtaagtggtcccactgtcaaagttatgtta---tattgtttcttcccatgtagtcttggtttcaagtactcatta-tgagggcctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTCGCAGACTATGTCTCTATATGGCCAAACAAGTTTCAAAACAAGACTAATG
        ||| |  |     | |   | |  | | |   | |||||| |     || |   |   ||| |  ||||  ||  ||     || |||| |||||||||| |||||||||||||||||||||||  | ||| | || ||||| ||| | ||||| || ||||||||||  ||||| ||||| || || ||||
cattttcttaattattatttttcttttattcctataaccctgttgtttatgtttgtgaaaattgaatttgatttacttcttggtgtctatctctttgtagGTGAATGGTGTTGCTCAGTTACACAGTGATATACTAAAGTCAGAATTATTTGCAAATTATGTTTCAATATGGCCAACAAAGTTCCAAAATAAAACCAATG

upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 9
---------gtaagtggtc----ccactgtcaaagttatgt-tatattgtttcttcccatgtagtcttggtttcaagtactcattatgagggcctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTCGCAGACTATGTCTCTATATGGCCAAACAAGTTTCAAAACAAGACTAATG
          ||| |  ||    || || |      | ||| |  ||| ||| | | | |  |   |||     ||| |    |   ||   || || ||||||| ||||| ||||||||||||||||||||||| || || || |||||||| ||||||||||||||||||||||| | |||||| || || || || ||||
tttcttcctttaatttctctcttcctctcttctctctctgtctccattttttttgcacgtacaaatttgaa---aagcaactttctcgaccacccttgtgcagGTAAATGGTGTTGCTCAGTTACACAGTGATATTTTAAAAGCCGAGTTATTTGCAGACTATGTCTCTATATGGCCCACCAAGTTCCAGAATAAAACCAATG

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|86060245|gb|DR356002.1|DR356002
EST:     AAAAGCCTGTGGTGAGAATGGCTAACTTATGTGTTGTATCCTCGCATACG                         GTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTC
genomic: AAAAGCCTGTGGTGAGAATGGCTAACTTATGTGTTGTATCCTCGCATACGgtaagtggtc ... ctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcttcccatgtagtcttggtttcaagtactcattatgagggcctttttgcagGTGAATGGCGTTGCTCAGTTACACAGTGATATCTTGAAGGCTGAGTTATTCGCAGACTATGTCTCTATATGGCCAAACAAGTTTCAAAACAAGACTAATG
                                            cctttttgc  CT-rich tract
                                tcattat  TA-rich tract