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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATGTGGCAGATTATTACCAGCAGCAAGTAGAGATGCTTGAGGGCTTTACTGAAATGGATGAACTTGCAGAACGTGGCTTTGTTCCTGGAATGTCAAAGgttagcctaaatgaggctactacttgtcacatttgttgaaaccatgatgcatttgttcttgttgattgatacttttctgaatttctttgtgttttgtgtacatag

Basic information

species Arabidopsis thaliana
transcript AT2G39450.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G39450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G014454_T01 (Zea mays), 5'ss of exon 2
CAATGTGGCAGATTATTACCAGCAGCAAGTAGAGATGCTTGAGGGCTTTACTGAAATGGATGAACTTGCAGAACGTGGCTTTGTTCCTGGAATGTCAAAGgt----ta-gcctaaatgaggctactacttgtcacatttgttgaaacca-tgatgcatttgttcttgttgattgatacttttctgaatttctttgtgttttgtg--tacatag----------------------------------
   ||| || || || || || |||||||| |||||||||||||| |||| ||| |||||   |||| |||| ||||| ||  ||||||||||||| |||||    || |  | || ||   || |    ||  | | ||| ||    | ||||  | || | ||   ||  |     | | ||   ||| ||       || |  | |||                                    
TGTTGTTGCTGAATACTATCAACAGCAAGTGGAGATGCTTGAGGGTTTTAGTGAGATGGACACACTTACAGATCGTGGTTTCCTTCCTGGAATGTCCAAGgtatattatgtatgaacgacattagtgaaggtagcttatgtggatgttaatgatcaaattttcctcactgtgtttgtttctacttctttttttaagaaagtgagactgcatcaataaatgcttgataaccactttattgacctgcag

upper sequence: AT2G39450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G10580.1 (Glycine max), 5'ss of exon 2
CAATGTGGCAGATTATTACCAGCAGCAAGTAGAGATGCTTGAGGGCTTTACTGAAATGGATGAACTTGCAGAACGTGGCTTTGTTCCTGGAATGTCAAAGgttagcctaaatgaggctactacttgtcacatttgttgaaaccatgatgcatttgttcttgttgattgatacttttctgaatttctttgtgttttgtgtacatag
 ||| | || || || || |||||||| |||||  |||||||||||||||||||||||||||   | ||||| ||||| ||| ||||||||||||||||||||   |||  | |   | || ||    |   |   |  |   | |||  || |||    ||  | || |  ||| |||||| ||     |  | ||||    ||
TAATATTGCGGAGTACTATCAGCAGCAGGTAGAAGTGCTTGAGGGCTTTACTGAAATGGATGCTTTAGCAGAGCGTGGTTTTATTCCTGGAATGTCAAAGgtt--tctatttcat-ttcctcctc--tatgctctctagatttaagattgatatgta---gtcaaatgct--tttgctgaatatc-----gactggtgtgggcag

upper sequence: AT2G39450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA18G52280.1 (Glycine max), 5'ss of exon 2
CAATGTGGCAGATTATTACCAGCAGCAAGTAGAGATGCTTGAGGGCTTTACTGAAATGGATGAACTTGCAGAACGTGGCTTTGTTCCTGGAATGTCAAAGgttagcctaaatgaggctactacttgtcacatttgttgaaaccatgatgcatttgttcttgttgattgatacttttctgaatttctttgtgttttgtgtacatag
 ||| | ||||| || || |||||||| || ||  |||||||||||||||||||||||||||   | ||||| ||||| ||| ||||||||||||||||||||    |            |   | | |   |   |  |   | |||  || |||    ||  | || |  ||| |||||| ||    || | || | |     
TAATATTGCAGAGTACTATCAGCAGCAGGTTGAAGTGCTTGAGGGCTTTACTGAAATGGATGCTTTAGCAGAGCGTGGTTTTATTCCTGGAATGTCAAAGgtttcttt-----------ttctcttttatggtctctagatttaagattgatatgta---gtcaaatgct--tttgctgaatatccac-tgatgtgggcag----

upper sequence: AT2G39450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv13s0019g00020.t01 (Vitis vinifera), 5'ss of exon 2
CAATGTGGCAGATTATTACCAGCAGCAAGTAGAGATGCTTGAGGGCTTTACTGAAATGGATGAACTTGCAGAACGTGGCTTTGTTCCTGGAATGTCAAAGgttagcctaaatgaggctactacttgtcacatttgttgaaaccatgatgcatttgttcttgttgattgatacttttctgaatttctttg----tgttttgtgtacatag
  ||||||| || ||||| |||||||| ||||| ||||| |||||||||| |||||||||||   | ||||| | ||| | | ||||| ||||| || |||||  | ||  |           |   |  |||  || |||  |   ||   ||| ||||||| |    ||  |  || |   |   ||    |  |||| ||    ||
TGATGTGGCTGAGTATTATCAGCAGCAGGTAGAAATGCTGGAGGGCTTTAATGAAATGGATGCCTTGGCAGAGCATGGATATATTCCTCGAATGACAGAGgtt--catactttccatcggccatcaccctattctttaaaagtagtgtgttcttgatcttgttaaactctaaatgcctcagactaaatggtaattgtttgggtttgcag

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|124882343|gb|EH961245.1|EH961245
EST:     CTGAAATGGATGAACTTGCAGAACGTGGCTTTGTTCCTGGAATGTCAAAG                         GAAGAGCAGGATAATTTGGCTAAAAG
genomic: CTGAAATGGATGAACTTGCAGAACGTGGCTTTGTTCCTGGAATGTCAAAGgttagcctaa ... gtgtacatagGAAGAGCAGGATAATTTGGCTAAAAG