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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtttaactattacctatcatgaaatagaaaatcaaatggaaatagagaaaagcctcaaataaacttaattcttaaccctttgatgtttatacattggcttatttgttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGTACACAACTGTTTACGTCGGTAATCTTGCTCCAGAG

Basic information

species Arabidopsis thaliana
transcript AT1G17370.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


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

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

upper sequence: AT1G17370.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv09s0002g00880.t01 (Vitis vinifera), 3'ss of exon 9
gtatgtttaactattacctatcatgaaatagaaaatcaaatggaaatagagaaaagcctcaaataaacttaattcttaaccctttgatgtttatacattggcttatttgttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGTACACAACTGTTTACGTCGGTAATCTTGCTCCAGAG
      | ||  ||    |   |  ||||           | | | || |     ||   | || |   || |  | |      | |||||| |    ||  ||  ||||    ||||| ||||||||||| ||  | | |  ||| |||||||| |||||  ||||||| ||||||||||| || || |||||||||||||||
------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|116477129|gb|EG519721.1|EG519721
EST:     ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAGATAC
genomic: ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATAC
EST: gi|116486725|gb|EG529317.1|EG529317
EST:     ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
genomic: ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
EST: gi|124971942|gb|EL045669.1|EL045669
EST:     TGGTGTCTCGG                         AGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
genomic: TGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
EST: gi|164166038|gb|ES042443.1|ES042443
EST:     GATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
genomic: GATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
EST: gi|116486728|gb|EG529320.1|EG529320
EST:     ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGCCTCGG                         AGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
genomic: ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
EST: gi|125116760|gb|EL166172.1|EL166172
EST:     CAGAGCTCTGATTCCAAAAGCGTCGTTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATG
genomic: CAGAGCTCTGATTCCAAAAGCGTCG-TGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATG
EST: gi|116386137|gb|EG428729.1|EG428729
EST:     ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
genomic: ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
EST: gi|116486731|gb|EG529323.1|EG529323
EST:     ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGC
genomic: ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
EST: gi|116386087|gb|EG428679.1|EG428679
EST:     ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
genomic: ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT
EST: gi|124981113|gb|EL054002.1|EL054002
EST:     ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAG
genomic: ACAGAGCTCTGATTCCAAAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAG
EST: gi|164120337|gb|ES191873.1|ES191873
EST:     AAAGCGTCGTGGAACTTACCAGTGGTGTCTCGG                         AGGATGGTAAAGATACTACTAATGGCGAAGCTCCTGAGAACAATGCTCAGT
genomic: AAAGCGTCGTGGAACTTACCAGTGGTGTCTCGGgtatgtttaa ... gttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaacttaattcttaaccctttgatgtttatacattggcttatttgttcctgcagAGGATGGTAAAGATACTACTAATGGTGAAGCTCCTGAGAACAATGCTCAGTACACAACTGTTTACGTCGGTAATCTTGCTCCAGAG
                                          tttgttcct  CT-rich tract
     ttaattcttaa  TA-rich tract