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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCAgttagtattcacaaacattataattattcatgtcttagatccacatatatcagaattatcttttgatgtccattatttcttttatctttttgtacgcag

Basic information

species Arabidopsis thaliana
transcript AT3G06670.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA07G37040.1 (Glycine max), 5'ss of exon 6
CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCAgttagtattcacaaacattataattattcatgtcttagatccacatatatcagaattatcttttgatgtccattatttcttttatctttttgtacgcag
|| || || || ||||| |||||||  || || | ||| || || |||||||||||| ||||||||||||||||||| ||||| || ||||| || ||  || ||||||||      ||| | | |||  ||  ||||||||  || | |   |||||| |  | || ||  |  | |  | | | |  |     ||||
CAAGAGTTTTTTCGGAAGCTGATGGAAGTATTCAGAATGTGTGAAGACTTGGAAAATATTGATGGCCTTCACATGATTTTCAAAATAGTCAAAGGGATTGgtcagtattcat---ttttaca-tcattt-tgatttagatccttatttttgtcaattatgtcctcat-tcattcttgtgatatgtttgctacattgcag

upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA17G03570.1 (Glycine max), 5'ss of exon 8
CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCAgttagtattcacaaacattataattattcatgtcttagatccacatatatcagaattatcttt----tgatgtccattatttcttttatctttttgtacgcag
|| |  || || ||||| |||||||  || || | ||| || || |||||||||||| ||||||||||||||||||| ||||| || ||||| || ||  || ||||||||      || ||  || |  ||  || |||||  || | |   |||||| | |    | ||     | || | ||||   |  ||| |     
CAAGCATTTTTTCGGAAGCTGATGGAAGTATTCAGAATGTGTGAAGACTTGGAAAATATTGATGGCCTTCACATGATTTTCAAAATAGTCAAAGGGATTGgtcagtattcat-----ttttacataattttgatttggatccttatttttgtcaattatgtctgcattcattcttgtgatatgttttgcttcattgcag----

upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G15270.1 (Glycine max), 5'ss of exon 7
CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCAgttagtattcacaaacattataattattcatgtcttagatccacatatatcagaattatcttttgatgtccattatttcttttatctttttgtacgcag
|| ||||| ||  |||| || |||| |||||||| | | || || |||||||||||| | ||||||||||||||||| | ||| || ||||| || |||||| |||||| ||     ||||     || |  |  |   |      | ||     || | |||  || ||   ||| | |||  |  | ||| |     
CAAGATTTTTTTGGGAAGCTCATGGATGTTTTTAGAGTTTGTGAAGACTTGGAAAATATGGATGGCCTTCACATGATTTACAAAATAGTCAAAGGGATCAgtcagtatttac---ttttatgccattttaatttgtcactttgttgacat-----ttctttttccatttctgatatatgtttgtttctcttgcag----

upper sequence: AT3G06670.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv05s0077g01200.t01 (Vitis vinifera), 5'ss of exon 8
CATGATTTCTTCCGGAATCTGATGGGTGTTTTTAAAATATGCGAGGACTTGGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCAgttagtattcacaaaca--ttataattatt--catgtcttagatccacatatatcagaattatcttttgatgtccattatt--tcttttatctttttgtacgcag
|| || || ||||  || |||||||   | ||||  |||||||| |||||||||||  | ||||||||||||||||||| ||| |||||||| || |||||| |||  || |       || |   |  |   || ||||  ||  |      |  || |||||  ||  |   || ||     |||   | || ||     |||
CAAGAATTTTTCCAAAAGCTGATGGACCTATTTAGGATATGCGAAGACTTGGAAAACATGGATGGCCTTCACATGATATACAAGATTGTCAAAGGGATCAgtcagtgctctctttttacttctctctgctactatatcttcaatttaggctcttatgatttatccgtttgttggcactaagaaccttgcgtgttattacttacag

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|124863860|gb|EH948297.1|EH948297
EST:     ATATTCAACATTGTCAAGGGAATCA                         TTTTGCTTAACAGTTCTCAGATCTTGGAGAAAATATTTGGAGATGAAATTG
genomic: ATATTCAACATTGTCAAGGGAATCAgttagtattc ... ttgtacgcagTTTTGCTTAACAGTTCTCAGATCTTGGAGAAAATATTTGGAGATGAA-TTG
EST: gi|116379504|gb|EG422096.1|EG422096
EST:     GGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCA                         TTTTGCTTA-CAGTTCTCAGATCTTGGAGAAA-TATTTGGAGATGAATTGA
genomic: GGAAAATGTTGATGGCCTTCACATGATATTCAACATTGTCAAGGGAATCAgttagtattc ... ttgtacgcagTTTTGCTTAACAGTTCTCAGATCTTGGAGAAAATATTTGGAGATGAATTGA