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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagcatcttccagtttcctccttcatatcaattttgtattcttgttaagtcatctttgttttatggagcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC

Basic information

species Arabidopsis thaliana
transcript AT1G05170.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os03g38050.1 (Oryza sativa), 3'ss of exon 8
gtaaag--catcttccagtttcctccttcatatcaattttgtattcttgttaagt-catctttgttttatggag-cagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC
||||    ||| ||   ||    || | | |     |||      ||    || | |   |||||||| |     ||| || || || ||||||||||| ||||||||||| || || |||   |||||||| |||||||||||||| || || |||||||| || || || | ||| 
gtaagtcccatgttgttgtcatgtcttccttgatgttttaaacagctgaccaaataccaatttgttttttattctcagGGGTGTAAGATACCATGAGCCCGAGTACTGGAAATTCGGCGAATGGGGGAACAAGTACTTCCGTCATGCAACCGGCCAGTTATATGCAATCTCCAAGGAT

upper sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 8
----gtaaagcatcttccagtttcctccttcat------atcaa----ttttgtattcttgtt--aagtcatctttgttttatggagcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC
    | |||  || |||    ||  |  |  ||      || ||     ||||  || ||| |   |     |  |  ||| | |  ||||||||| ||||||||||| || ||||||||||||||||| ||   ||| |||| ||||||||||||||| || |||||||| || ||||||||||  || 
gtgagaaaatgattttctttgtttttattgaattgaattattaaagctctttgacttgttgcttctaacttgccctactttgttgcacagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAGTTTGGAGAGGCTGGAAACAGATACTTCCGTCATGCCACAGGACAGTTGTATGCCATTTCAAACGAT

upper sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA13G38500.1 (Glycine max), 3'ss of exon 8
--gtaaagcatcttccagtttcctc------cttcata------tcaat--tttgtattcttgttaagtcatctttgttttatgga---------gcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC
  |  ||  || |||   | ||||        |||||       ||||   | |||| |  | | |  ||    || ||   |||          |||||||||| ||||||||||| ||||| |||||||| ||||| ||   ||| ||||| |||||||| || || ||||||||||| || ||||||||||  || 
gtgagaataattttcttttatccttgtgctatttcatgaaagggtcaaaaatatgtaatgctttcacttctagcttcttacttggccactttcttgcagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCTGGAAACAAGTACTTCCGCCACGCCACTGGACAGTTGTATGCCATTTCAAAAGAT

upper sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G10520.1 (Glycine max), 3'ss of exon 8
----gtaaagcatcttccagtttcctcct--tcatatcaattttgtattct----tgttaagtcatctttg-----ttttatggagcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC
    | || || | ||   ||||        |   || | |   | | | |    |||    ||     ||     |  | ||  |||||||||| ||||||||||| || ||||||||||| ||||| ||   ||| ||||  |||||||||||||| || || ||||| || |||||||| |  || 
gtgagaaatgcttatttttgtttttattgaattgaattactaaagcactttgacctgtagcttctaacctgagaaatactttgttgcagAGGGGTAAGGTACCATGAACCTGAGTACTGGAAATTTGGAGAGGCTGGAAACAGGTACTTCCGTCATGCCACAGGGCAGTTGTATGCCATTTCGAATGAT

upper sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA12G31980.1 (Glycine max), 3'ss of exon 8
------------gtaaagcatcttccagtttcctcct-------tcatatcaattttgtattcttgttaa-gtcatctttgttt-----tatggagcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC
             |   | ||| |   | |   || |       |||||   || | || || |  ||     | |||| ||||     | |   |||||||||| ||||||||||| ||||| |||||||| ||||| ||    || ||||| |||||||| || || || |||||||| || ||||||||||  || 
gtgagaatcatattcttgtatccttgtgctatttcatgaaagggtcataaatatgtagtgttttcatttctagcttcttagtttgccactttcttgcagAGGGGTAAGGTACCATGAACCAGAATACTGGAAATTTGGAGAGGCCGGAAACAAGTACTTCCGCCACGCCACAGGACAGTTGTATGCCATTTCAAAAGAT

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|124724228|gb|EH815630.1|EH815630
EST:     CCACGGGTCTATATTGGTTGCATGAAATCTGGCCCTGTCCTCTCTCAAAA                         AGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGT
genomic: CCACGGGTCTATATTGGTTGCATGAAATCTGGCCCTGTCCTCTCTCAAAAgtaaagcatc ... tatggagcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctccttcatatcaattttgtattcttgttaagtcatctttgttttatggagcagAGGGGTGAGGTACCATGAGCCAGAGTACTGGAAGTTTGGTGAAAATGGGAACAAATACTTCCGTCATGCTACTGGACAGTTATACGCCATTTCAAGGGAC
                                    tctttgtttt  CT-rich tract
        atatcaattttgtatt  TA-rich tract