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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgtatatactttttcttgcaccattttttgaattctacgctccactgacaaacacataaggaaacacaaagctgagcgttgatatgtcacttttgtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCACTTGGAACATCTGTAGATGAGCTAGACCAAACAAGCCAGTATCCTTCAC

Basic information

species Arabidopsis thaliana
transcript AT2G33640.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G33640.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv18s0122g00920.t01 (Vitis vinifera), 3'ss of exon 8
gttttgtatatactttttcttgcaccattttttgaattctacgctccactgacaaacacataaggaaacacaaag--ctgagcgttgatatgtcac-ttttgtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCACTTGGAACATCTGTAGATGAGCTAGACCAAACAAGCCAGTATCCTTCAC
                     |  | |||  |  ||| || |  || |        |    ||   |    |||   ||||    ||| |  | |   | | | |||| |||| |||||||| ||||| |||||||||||| ||||| | || | |||||| | |||| ||||||||||||    ||| ||   |||   |    |||| |
---------------------gtgc-attcctgaaatgctgctgtctatctctccccctccaaactattttaaatatctgaaacatgaaaaattatgctcttttgctgcagGGTATCACAACCTATGAGTATGTTGTTGCCATGAGAACCCAGAGTGAACCTCCTGGACCATCTGTAGATGGAGGAGAGCAGCAAAGTATGCCATCTTCTC
















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|116401160|gb|EG443752.1|EG443752
EST:     GATACCTCTTGGGGGAACTTTTCTTTT-CCATATGATTTTGATCCGAAAG                         GGA-TCACA-CATATGAATATGGTGTTGCCC
genomic: GATACCTCTTGGGG-AACTTTTCTTTTTCCATATGATTTTGATCCGAAAGgttttgtata ... gtggctgtagGGAATCACAACATATGAATATGTTGTTGCCC
EST: gi|116400822|gb|EG443414.1|EG443414
EST:     TGATACCTCTTGGGGAACTTTTCTTTTTCCATATGATTTTGATCCGAAAG                         GGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
genomic: TGATACCTCTTGGGGAACTTTTCTTTTTCCATATGATTTTGATCCGAAAGgttttgtata ... gtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
EST: gi|116401154|gb|EG443746.1|EG443746
EST:     TGATACCTCTTGGGGAACTTTTCTTTTTCCATATGATTTTGATCCGAAAG                         GGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
genomic: TGATACCTCTTGGGGAACTTTTCTTTTTCCATATGATTTTGATCCGAAAGgttttgtata ... gtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
EST: gi|116401161|gb|EG443753.1|EG443753
EST:     TGATACCTCTTGGGGAACTTTTCTTTTTCCATATGATTTTGATCCGAAAG                         GGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
genomic: TGATACCTCTTGGGGAACTTTTCTTTTTCCATATGATTTTGATCCGAAAGgttttgtata ... gtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
EST: gi|116400801|gb|EG443393.1|EG443393
EST:     TGATACCTCTTGGGGAACTTTTCTTTTTC-ATACGATTTTGATCCGAAAG                         GGGATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
genomic: TGATACCTCTTGGGGAACTTTTCTTTTTCCATATGATTTTGATCCGAAAGgttttgtata ... gtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
EST: gi|116400802|gb|EG443394.1|EG443394
EST:     TGATACCTCTTGGGGAACTTTTCTTTTTCCATACGATTTTGATCCGAAAG                         GGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA
genomic: TGATACCTCTTGGGGAACTTTTCTTTTTCCATATGATTTTGATCCGAAAGgttttgtata ... gtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaacacataaggaaacacaaagctgagcgttgatatgtcacttttgtggctgtagGGAATCACAACATATGAATATGTTGTTGCCCTGAGAGCGCAAACTGAACCACTTGGAACATCTGTAGATGAGCTAGACCAAACAAGCCAGTATCCTTCAC
                           cgttgat  putative branch site (score: 5)
                                        cttttgt  putative PPT
                             ttgatat  TA-rich tract