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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTGGAATCCTCTTGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttctgtctaatttcaaatctttatgagtgcgtcacacaaaacatagaaacaatataacactgatgtctcgtgagattgctcattaaagtctgt...

Basic information

species Arabidopsis thaliana
transcript AT1G54100.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G54100.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os09g26880.4 (Oryza sativa), 5'ss of exon 5
ATGTGGAATCCTCTTGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttctgtctaatttcaaatctttatgagtgcgtc--acacaaaacatagaaacaatataacactgatgtct-cgtgagattgctcattaaagtctgt--
 ||||||||||||||||  ||||||||||||||||||| || |||||||| ||||| || || |||||||     ||||  | | | |   | || ||||      ||  |   ||| | ||     |   | | |   || | |    ||| ||  | || |      
GTGTGGAATCCTCTTGGAGTTGTTGGTGTTATCACAGCATTCAATTTTCCTTGTGCTGTGCTGGgtaagt-----gtcttctcttagaatatcattagtgaaatcaacttagtgcattgcaattccctgttatttacccctacatactcttgatctatcaaatgcaaaa

upper sequence: AT1G54100.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G130440_T01 (Zea mays), 5'ss of exon 6
ATGTGGAATCCTCTTGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttctgtctaatttcaaatctttatgagtgcgtcacacaaaacatagaaacaatataacactg-atgtctcgtgagattgctcattaaagtctgt
 |||||||||| |||||  |||| |||||||| || || |||||||| || ||||| || |||||||||||| ||| |   |   |  | |     | | | |  |   ||         | ||| ||  ||  ||    | | || |  ||| |||   |   |
GTGTGGAATCCCCTTGGAGTTGTGGGTGTTATAACGGCATTTAATTTCCCTTGTGCTGTGCTTGgtaagtct-ctgacagctcatatgtttggtgcattacatttctagaatttgtattgccataaaagtctacataatgcatcagctctctctttactttgcat

upper sequence: AT1G54100.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: EFJ38712 (Selaginella moellendorffii), 5'ss of exon 6
ATGTGGAATCCTCTTGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtc-------ttctgtctaatttcaaatctttatgagtgcgtcacacaaaacatagaaacaatataacactgatgtctcgtgagattgctcattaaagtctgt
 | |||||||||||||| |||||||| || ||||| || |||||||||||||| || || ||||||| |         || | |    | | |||  |||||  ||  ||  |      |  ||                                               
GTTTGGAATCCTCTTGGTATTGTTGGAGTCATCACTGCTTTTAATTTTCCCTGCGCTGTACTTGgtacgatgaatgagttttcttctttgttaaacttttatttgt-tgtgcctttgttctcag-----------------------------------------------

upper sequence: AT1G54100.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: EFJ31432 (Selaginella moellendorffii), 5'ss of exon 6
ATGTGGAATCCTCTTGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtc-------ttctgtctaatttcaaatctttatgagtgcgtcacacaaaacatagaaacaatataacactgatgtctcgtgagattgctcattaaagtctgt
 | |||||||||||||| |||||||| || ||||| || |||||||||||||| || |||||||||| |         || | |    | | |||  |||||  ||  ||  |      |  ||                                               
GTTTGGAATCCTCTTGGTATTGTTGGAGTCATCACTGCTTTTAATTTTCCCTGCGCTGTTCTTGgtacgatgaatgagttttcttctttgttaaacttttatttgt-tgtgcctttgttctcag-----------------------------------------------

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|116420799|gb|EG463391.1|EG463391
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|116420807|gb|EG463399.1|EG463399
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|116486592|gb|EG529184.1|EG529184
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|301501447|gb|HO206987.1|HO206987
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|116486594|gb|EG529186.1|EG529186
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|301501173|gb|HO206713.1|HO206713
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|116420806|gb|EG463398.1|EG463398
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|301502366|gb|HO207906.1|HO207906
EST:     GGCATTGTTGGTGTTATCACAGCCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: GGCATTGTTGGTGTTATCACAGC-GTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|116486590|gb|EG529182.1|EG529182
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
EST: gi|301502094|gb|HO207634.1|HO207634
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTGGAAAG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTGGAAAG
EST: gi|116486591|gb|EG529183.1|EG529183
EST:     TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTG                         GTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG
genomic: TGGCATTGTTGGTGTTATCACAGCGTTTAATTTTCCCTGTGCAGTTCTTGgtaagtcttc ... ggtattgcagGTTGGAATGCTTGTATTGCTCTTGTCTGTGGAAACTGTGTAGTCTG