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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGCATTCAATCAAAGGAGAAAGTTGAAGCGAATTTGCTAAGCAAGTACGAGGCAACAATGAGAAGGGAAAGGGCATTGGCTTATTCATACTCTCATCAGgtactccagtcgttacctataatgctgaatgtgtggaaagatacaattaaaaagtgaacacatccattgaagttgaatctgtggttcatttgaatgttgtaatgatcctatatgttcatgtttgcag

Basic information

species Arabidopsis thaliana
transcript AT5G03040.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G03040.3 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA13G20070.1 (Glycine max), 5'ss of exon 4
TAGCATTCAATCAAAGGAGAAAGTTGAAGCGAATTTGCTAAGCAAGTACGAGGCAACAATGAGAAGGGAAAGGGCATTGGCTTATTCATACTCTCATCAGgtactccagtcgttacctataatgctgaatgtgt-ggaaagatacaattaaaaagtgaacacatccat-tgaagttgaatctgtggttcatttgaatgttgtaatgatcctatatgttcatgtttgcag
 ||||| |||||||| ||  |||||||||| || || || |||||||| || ||  | |||||||| ||||| ||| |||||||||||| ||||||||||||  |  | |  |  | ||| |   |  || |||  | |   |  ||  || || || | | |   || ||||    |||   ||||  | |||||  |  |                           
CAGCATACAATCAAAAGAACAAGTTGAAGCCAAGTTACTGAGCAAGTATGAAGCTGCTATGAGAAGAGAAAGAGCAATGGCTTATTCATTCTCTCATCAGgtttttaatttct--cttatgaatttacatttgttaggatagtgaaacaaacaaatggaaaaaaagatgtgaaagcaaattgttggtgaacttgaacatcat---------------------------

upper sequence: AT5G03040.3 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G05720.1 (Glycine max), 5'ss of exon 5
TAGCATTCAATCAAAGGAGAAAGTTGAAGCGAATTTGCTAAGCAAGTACGAGGCAACAATGAGAAGGGAAAGGGCATTGGCTTATTCATACTCTCATCAGgtactccagtcgttacctataatgctgaatgtgt--ggaaagatacaattaaa-----aagtgaacacatccattgaagttgaatctgtggttcatttgaatgttgtaatgatcctatatgttcatgtttgcag
 ||| | |||||||| ||  |||||||||| || || || |||||||| || ||  | |||||||| ||||| ||| |||||||||||| ||||||||||||  |       |  | ||| |   |  || |||  ||| |   | | | |||     || |||| | |   | ||||    |||   ||||  | ||||                                  
CAGCGTACAATCAAAAGAACAAGTTGAAGCCAAGTTACTGAGCAAGTATGAAGCTTCTATGAGAAGAGAAAGAGCAATGGCTTATTCATTCTCTCATCAGgttttttttatttctcttatgaatttacatttgttaggataaggatagtgaaacaaacaaatgaaaaaaataaatgaaagcaaattgttggtgaacttga----------------------------------

upper sequence: AT5G03040.3 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G36270.1 (Glycine max), 5'ss of exon 5
TAGCATTCAATCAAAGGAGAAAGTTGAAGCGAATTTGCTAAGCAAGTACGAGGCAACAATGAGAAGGGAAAGGGCATTGGCTTATTCATACTCTCATCAGgtactcc------agtcgttacctataatgctgaatgtgtggaaagatacaattaaaaagtgaacacatccattgaagttgaatctgtggttcat-ttgaatgttgtaatgatcctatatgttcatgtttgcag
 ||| | |||||||| ||  || | ||||| || || ||||||||||| ||||| || |||||||| ||||| ||| |||||||| ||| | ||||||||||  |        |     | |  || |   |  |  || |  || ||    | ||||| | || ||    | ||||    ||||| |     || | | || ||                             
CAGCCTACAATCAAAAGAACAAATCGAAGCCAAGTTACTAAGCAAGTATGAGGCTACTATGAGAAGAGAAAGAGCACTGGCTTATGCATTCACTCATCAGgtttttttaaaaaaaaaaattctcatcaatttacacatgcgagaaaatg-ggtgaaaaatttaatacga--actgaaa---aatctttcaaaaatatcgcatatta----------------------------

upper sequence: AT5G03040.3 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv08s0040g02360.t01 (Vitis vinifera), 5'ss of exon 5
TAGCATTCAATCAAAGGAGAAAGTTGAAGCGAATTTGCTAAGCAAGTACGAGGCAACAATGAGAAGGGAAAGGGCATTGGCTTATTCATACTCTCATCAGgtactccagtcgttacctataatgctgaatgtgtggaaagatacaattaaaaagtgaacacatccattgaagttgaatctgtggttcatttgaatgttgtaatgatcctatatgttcatgtttgcag----------------------------------------------------------------------
 ||| | |||||||| ||  || |||||||     |  ||| |||| | | |||| |||||||||| ||||||||| |||||||| |||  ||||||||||||  | | || | |   ||| || |   ||      |  || || ||  |   | || | |  || ||  |||| ||||     | || |   | | | ||||     | |     ||    |  |                                                                      
CAGCCTACAATCAAAAGAACAAATTGAAGCAGGCCTATTAAACAAGCAAGGGGCAGCAATGAGAAGAGAAAGGGCACTGGCTTATGCATTTTCTCATCAGgtatcctattcatca---atactgtttcctgccc---attatccatttttaggatcaaga-actcactg--gttggatcttccagttatcttggtat-gaaatggaaagaaaatcaaataccagtggtgcactcatgtagacacatgttttattattgcaaattcttgattaatccctgatggaattggtcctacag

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|47828004|gb|CK117688.1|CK117688
EST:     AGGCAACAATGAGAAGGGAAAGGGCATTGGCTTATTCATACTCTCATCAG                         CAAAACTGGAAGAACAACTCTAAATCTGGAAACCCGATGTTCATGGATCCA
genomic: AGGCAACAATGAGAAGGGAAAGGGCATTGGCTTATTCATACTCTCATCAGgtactccagt ... atgtttgcagCAAAACTGGAAGAACAACTCTAAATCTGGAAACCCGATGTTCATGGATCCA