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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctcgggtatgtttaactattacctatcatgaaatagaaaatcaaatggaaatagagaaaagcctcaaataaacttaattcttaaccctttgatgtttatacattggcttatttgttcctgcagagGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGTACACAACTGTTTACGTCGGTAATCTTGCTCCAGAG

Basic information

species Arabidopsis thaliana
transcript AT1G17370.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G17370.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA07G04640.1 (Glycine max), 3'ss of exon 9
gtctcgggtatgtttaactattacctatcatgaaatagaaaatcaaatggaaatagagaaaagcctcaaataa--acttaattcttaaccctttgatgtttatacattggcttatttgttcctgcagagGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGTACACAACTGTTTACGTCGGTAATCTTGCTCCAGAG
                           |  | |||   |   |      ||| ||         | ||   ||  | |  | |  || || |   ||      ||||    |  | | ||  | |||| ||||||||||| ||  ||||  |||| ||||||||||||||| ||||||| || |||||||| || ||||| ||||||||||||
---------------------------ttgtaaaaattattgtgtttgtgaagtattctgttttcccagtgaactaatggaatgctagccatgaaattaaccaacatgttttattctatttgtacagAAGATGGTAAAGAGACATCTAACAGTGATGCTCCTGAGAACAATCCTCAGTATACTACTGTTTATGTGGGTAACCTTGCTCCAGAG

upper sequence: AT1G17370.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA16G01230.1 (Glycine max), 3'ss of exon 9
gtctcgggtatgtttaactattacctatcatgaaatag---aaaatcaaatggaaatagagaaaagcctcaaataaacttaattcttaaccctttgatgtttatacattggcttatttgttcctgcagagGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGTACACAACTGTTTACGTCGGTAATCTTGCTCCAGAG
       |||     || |||| | | ||||||| ||        ||  |  ||| ||  | || ||     || || | |     ||||      ||||||      |  | ||||||| | |      ||||||||||| ||  ||||  |||| ||||||||||||||| ||||||| || || ||||| || ||||| |||||||| |||
-------gtaaa---aattattgcat-tcatgaagtattctgttttcccagtgaactaatggaatgctaggcatgaattaa----ctaac------atgttt------tatcctatttgtgcttt----agATGGTAAAGAGACCTCTAACAGTGATGCTCCTGAGAACAATCCTCAGTATACTACGGTTTATGTGGGTAACCTTGCTCCGGAG

upper sequence: AT1G17370.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv09s0002g00880.t01 (Vitis vinifera), 3'ss of exon 9
gtctcgggtatgtttaactattacctatcatgaaatagaaaatcaaatggaaatagagaaaagcctcaaataaacttaattcttaaccctttgatgtttatacattggcttatttgttcctgcagagGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGTACACAACTGTTTACGTCGGTAATCTTGCTCCAGAG
             | ||  ||    |   |  ||||           | | | || |     ||   | || |   || |  | |      | |||||| |    ||  ||  ||||    ||||| ||||||||||| ||  | | |  ||| |||||||| |||||  ||||||| ||||||||||| || || |||||||||||||||
-------------tcaaggatgcttttgtactaaatcattgtctcctttggattatat----gctagagattatgatagtgataagaaaccttatgtttgt----tgcattccttgt----gcagAAGATGGTAAAGAGACAGCAACTAATGAGGCTCCTGACAACAACCCTCAGTATACAACTGTTTATGTGGGCAATCTTGCTCCAGAG

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|116486725|gb|EG529317.1|EG529317
EST:     AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGT                         GTCTCGGAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
genomic: AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTgtctcgggta ... tcctgcagagG------A---TGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
EST: gi|116386087|gb|EG428679.1|EG428679
EST:     AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGT                         GTCTCGGAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
genomic: AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTgtctcgggta ... tcctgcagagG------A---TGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
EST: gi|116486731|gb|EG529323.1|EG529323
EST:     AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGT                         GTCTCGGAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
genomic: AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTgtctcgggta ... tcctgcagagG------A---TGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
EST: gi|116486728|gb|EG529320.1|EG529320
EST:     AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGT                         GCCTCGGAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
genomic: AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTgtctcgggta ... tcctgcagagG------A---TGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
EST: gi|116386137|gb|EG428729.1|EG428729
EST:     AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGT                         GTCTCGGAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT
genomic: AGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTgtctcgggta ... tcctgcagagG------A---TGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttaattcttaaccctttgatgtttatacattggcttatttgttcctgcagagGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGTACACAACTGTTTACGTCGGTAATCTTGCTCCAGAG
                                        tttgttcct  CT-rich tract
                        tttatacatt  TA-rich tract