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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaaattctgtaaccattataaaagatacctagaaagaataacatgtcttatttttcttgcgtgtttcctgtttgactgtctattttccactataaactaatattaaagaggattaaacacctagattgttcatatttctgatttgacatgcttctcttgctgctccggtgtgatattttcagGGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG

Basic information

species Arabidopsis thaliana
transcript AT3G20870.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20870.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G41580.5 (Glycine max), 3'ss of exon 7
gtagaaattctgtaaccattataaaagatacctagaaagaataacatgtcttatttttcttgcgtgtttcctgtttgactgtctattttccactataaactaatattaaagaggattaaacacctagattgttcatatttctgatttgacatgcttctcttgctgctccggtgtgatattttcagGGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
                                                                   |    ||||| | || | | | ||   ||||  |    | |||    |||  | |     ||  |  | | |||| |||    |   ||  | | |||              ||  |||||||||| |||||||||||| |||||||||| ||| | ||
-------------------------------------------------------------------tctgagtttgtcagtttttctacccacataatattccgtcaaaacacattttaaa----aatgctctacagttcttatt--gtaattttaaccttctgtc------------ttctagGGTGTTGCTGTTGCACTTCCTGTTTATTTTGCGACACAAAG

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA15G03820.2 (Glycine max), 3'ss of exon 7
gtagaaattctgtaaccattataaaagatacctagaaagaataacatgtcttatttttcttgcgtgtttcctgtttgactgtctattttccactataaactaatattaaagaggattaaacacctagattgttcatatttctgatttgacatgcttctcttgctgctccggtgtgatattttcagGGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
                                                                        |||||||  | | || |||    | || || ||||       |  | |     | ||  |  | | |||| |||     |  ||      |  || | ||       ||  |||||||||| |||||||||||| |||||||||| ||| | ||
---------------------------------------------------------------------tgagtttgacacttttttctcc----tgaaatagtattccgtcaaaacacatttaaaaatgctctacagttcttatt----gtaatttaacaac--cttctgt------cttgtagGGTGTTGCTGTTGCACTTCCTGTTTATTTTGCGACACAAAG

upper sequence: AT3G20870.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv06s0004g01860.t01 (Vitis vinifera), 3'ss of exon 7
gtagaaattctgtaaccattataaaagatacctagaaagaataacatgtcttatttttcttgcgtgtttcctgtttgactgtctattttccactataaactaatattaaagaggattaaacacctagattgttcata-tttctgatttgacatgctt--ctcttgctgctccggtgtgatattttcagGGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
                                                                                     |||      |  ||     | |   ||||    ||    |||   |    ||   |||    | || |  ||    ||  || || ||   |   || |  |||||||||| |||||||||||| |||||||||||||| ||||
-------------------------------------------------------------------------------------tttagaggcaggaatgtggacttctgaggg---aatttatagggaggcagtaacctctagccttacttctttggtcctaacttcttcgagttttcatctatagGGTGTTGCTGTTGCACTTCCTGTTTATTTTGCAACACAGAG

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|86083065|gb|DR378824.1|DR378824
EST:     GAGTTGGTGTTAATCT-GCTTTGGCCATCGCTTTACACAACATTCCCGAG                         GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
genomic: GAGTTGGTGTTAATCTGGCTTTGGCCATCGCTTTACACAACATTCCCGAGgtagaaattc ... atattttcagGGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
EST: gi|116403229|gb|EG445821.1|EG445821
EST:     GAATTGGTGTTAATCTGGCTTTGGCCATCGCTTTACACAACATTCCCGAG                         GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
genomic: GAGTTGGTGTTAATCTGGCTTTGGCCATCGCTTTACACAACATTCCCGAGgtagaaattc ... atattttcagGGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
EST: gi|86082548|gb|DR378307.1|DR378307
EST:     TGTTAATCTGGCTTTGGCCATCGCTTTACACAACATT-CCGAG                         GGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
genomic: TGTTAATCTGGCTTTGGCCATCGCTTTACACAACATTCCCGAGgtagaaattc ... atattttcagGGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcatatttctgatttgacatgcttctcttgctgctccggtgtgatattttcagGGTGTTGCAGTTGCACTTCCTATTTATTTTGCAACAGAGAG
                                              tattttc  CT-rich tract
                                           tgatatttt  TA-rich tract