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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtcaatttctattccaaaaagtatctatatcctggtcaacgtttttcttcctctcaaggctgtcaaatatttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGACAACCCTG

Basic information

species Arabidopsis thaliana
transcript AT1G09210.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09210.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA10G28890.1 (Glycine max), 3'ss of exon 7
-----------------------gtttgtca-atttctattccaaaaagtatctatat-cctggtcaacgtttttcttcctctcaaggctgtcaaatatttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGACAACCCTG
                        ||||| | ||||  | | | | |  |  |  |||   |||| |    ||| ||| ||  |   ||  |   | || |||| || ||||||||||||||||||| || || || ||| |||| ||||||||||| ||||| |
gtttgtggaaatttttattgtaaatttgtaatatttgaaatacgacatattccattatgtttggtaatgaatttgctttctaactttgc-atgctacatatttgcagAAAATCAAGAACCCCAACTATAAAGGAAAATGGAAGGCACCATTGATTGATAACCCAG

upper sequence: AT1G09210.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA20G23080.2 (Glycine max), 3'ss of exon 7
---------------gtttgtcaatttctattccaaaaagtat------ctatatcctggtcaacgtttttcttcctctcaaggctgtcaa--atatttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGACAACCCTG
                ||||| ||||| || |  |  || |||       |  ||  || |     |   | | | |   ||   ||      | || |||| || ||||||||||||||||||| || || || ||| |||| ||||||||||| ||||| |
gtttgtggaaatttgttttgtaaatttgtaatatatgaaatatgacatattccattatgtttggaatgaatttgctttataactttgcatgctacatatttgcagAAAATCAAGAACCCCAACTATAAAGGAAAATGGAAGGCACCATTGATTGATAACCCAG

upper sequence: AT1G09210.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv07s0005g01390.t01 (Vitis vinifera), 3'ss of exon 7
gtttgtc--aatttctatt--ccaaaaagtatctatatcctggtcaacgtttttcttcctctcaaggctgtcaaatatttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGACAACCCTG
||| |    ||| | ||||    || | |    |||    |  |  | |||     | | || ||   |     |    || | ||||||| || ||||||||||||||||| || ||| |||| ||  ||||||||||||| |
gttcgctgaaatgtttattagttaagatgatgttatggaattttggaagttgacggttcacttaattgttcttgaaccattggcagCAAATAAAAAACCCCAACTACAAGGGAAAATGGAAGGCACCTATGATTGACAACCCAG

upper sequence: AT1G09210.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv14s0060g01290.t01 (Vitis vinifera), 3'ss of exon 7
gtttgtca---atttctattccaaa---aagtatcta--tatcctggtcaacgtttttcttcctctcaaggctgtcaaatatttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGACAACCCTG
||||||       || || |  ||    ||  || ||  | | ||||| || |  ||      ||  ||  |      || | || | || |||| ||||| |||||||||||||| || ||| |||| ||| ||||||||||||| |
gtttgtggcatggttttagtttaagttgaaacatttaattttgctggtaaaagagttg-----tcataattcctctctatctcttggcagAAAATTAAGAATCCCAACTACAAGGGAAAATGGAAGGCACCAATGATTGACAACCCAG

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|125260175|gb|EL274260.1|EL274260
EST:     CAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAG                         CAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGAT
genomic: CAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAGgtttgtcaat ... atttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGAC
EST: gi|116393133|gb|EG435725.1|EG435725
EST:     CTGCCCCAACAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAG                         CAAATCAAGAACCCCGACTACAATGGCAAGTGGGAGGCTCCATTGATTGAC
genomic: CTGCCCCAACAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAGgtttgtcaat ... atttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGAC
EST: gi|116412926|gb|EG455518.1|EG455518
EST:     CTGCCCCAACAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAG                         CAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGAC
genomic: CTGCCCCAACAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAGgtttgtcaat ... atttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGAC
EST: gi|124886074|gb|EH964976.1|EH964976
EST:     CTGCCCCAACAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAG                         CAAATCAAGAACCCCAA
genomic: CTGCCCCAACAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAGgtttgtcaat ... atttttgtagCAAATCAAGAACCCCAA
EST: gi|116412928|gb|EG455520.1|EG455520
EST:     CTGCCCCAACAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAG                         CAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGAC
genomic: CTGCCCCAACAATCCCCAACCCTGAGTACATGGGTGAATGGAAGCCTAAGgtttgtcaat ... atttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctatatcctggtcaacgtttttcttcctctcaaggctgtcaaatatttttgtagCAAATCAAGAACCCCAACTACAAGGGCAAGTGGGAGGCTCCATTGATTGACAACCCTG
                                            tattttt  CT-rich tract
                                       tcaaatatttttgta  TA-rich tract