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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatctggattgacttaggtgttttgtttggctttttttgttcgaaatattctcataagttggggtgactttaacctctgaacctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG

Basic information

species Arabidopsis thaliana
transcript AT4G10430.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G10430.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 5
ttatctggattgacttaggtgttttgtttggcttt--ttttgttcgaaatattctcataa-----gttggggtgacttt-aacctctgaacctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
      ||   |||  |||  |||| ||||| ||   | ||| |      || || | |       |||||    ||||   |   | ||| |  | |  |  | ||||||| ||||||||||||||||||| ||||  |||||||| || || ||||| ||||| || ||||| |||||| ||||||   | || |||
------gggcggac--aggaattttatttggtttgcgtgttgatattgtcatccttacattgcatattgggaaaccttttggcaaataaacttactatatggttacagGTGGATATATCATCATTATTGTGCTATGGTGATGGCCCTCGTGAGTCTCACTTGGGAGATTAAAGGACAACCAGACTGTGCAAAAAAGCAG

upper sequence: AT4G10430.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 5
ttatctggattgacttaggtgttttgtttggctttttttgttcgaaatattctcataagttggggtgactttaacctctgaa---cctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
  | |||     | |  | |  | | ||   ||||  |   |     || | | || |||           || | |   ||    |  || ||  |   ||||||| |||| ||||| |||||||| |||  |||||| || || || ||||||||||||||||| || ||||||||||| |  || || |||
--aactgacaacaatatgatactgt-ttaaactttcatatatttggttagttttattagtatcatctgtcatagcttacaaaaaatcccatatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG

upper sequence: AT4G10430.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ12166 (Selaginella moellendorffii), 3'ss of exon 5
ttatctggattgacttaggtgttttgtttggctttttttgttcgaaatattctcataagttggggtgactttaacctctgaacctgatgtgggtc-ttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
                                       ||  |   | || || |   ||| | |   | |      ||||     | |  |||  |||||||| ||||||||||||||| |||||||| ||  || ||||| ||  | |||||||  ||  |||| || ||    || || |  ||||||
---------------------------------------gtatgtg-ttttatcctgttttgcgttttttgtccgtcttgaattgtctctttgtcgctcagGTGGGTATATCATCATTATTTTGCCATGGTTACAGCTCTTGTGAGTTTGACATGGGGCATTCAAGGGCACCCGTCGTGCGTTCGTAAACAG

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|124718506|gb|EH809908.1|EH809908
EST:     GCTATGCGTGAGAATATATTAAGAGCTAACGGAAGCGATATTCGTCCATG                         GTGGCTATATCATCATTATTGTG
genomic: GCTATGCGTGAGAATATATTAAGAGCTAACGGAAGCGATATTCGTCCATGgtacttttat ... gggtcttcagGTGGCTATATCATCATTATTGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatattctcataagttggggtgactttaacctctgaacctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
                                                tcttc  CT-rich tract
         ataagtt  TA-rich tract