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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttaagtttggaatctatttcttggactctcagccacataggtctgttcttgatacctaatataaaagcattgtcttttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTTCTGGGTATCGCTGCATACTTATACAA

Basic information

species Arabidopsis thaliana
transcript AT3G09740.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G09740.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G20220.1 (Glycine max), 3'ss of exon 7
gtaatttaagtttggaatctatttct-tggactctcagccacataggtctgttcttgata--cctaatataaaagc----attgtcttttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTTCTGGGTATCGCTGCATACTTATACAA
|| |  | | |    | ||| | | | |  | |  || | |  ||    | |   |||||    |  |    || |    ||  | ||||   | |||||  |||| || || ||||||||||| |||||||||||||||  |||  || |||| || ||||| |||||||||||
gttagctgactaca-attctgtctgtatacatttccatcaatttaaagttttatctgatagatttcttgctgaatcttatatgatttttttcatccagCTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATTTTGGGAATTGCTGCCTACTTATACAA

upper sequence: AT3G09740.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G05870.1 (Glycine max), 3'ss of exon 8
gtaatttaagtttggaatctatttct-tggactctcagccacatagg------tctgttcttgatacctaat--ataaaagcattgtcttttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTTCTGGGTATCGCTGCATACTTATACAA
|| |  | | |    | | ||| | | | || |  || | |  ||        |||||  | |||  ||     |       ||  | ||||   | |||||  |||| || || ||||||||||| |||||||||||||||  |||  || |||| || ||||| |||||||||||
gttagctgactaca-attgtatctgtatagatttccatcaatttaaagttgtatctgtgatagatttcttgctgactcttatatgatttttttcatccagCTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATTTTGGGAATTGCTGCCTACTTATACAA
















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|86081762|gb|DR377521.1|DR377521
EST:     CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAG                         CTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
genomic: CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAGgtaatttaag ... ttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
EST: gi|116431994|gb|EG474586.1|EG474586
EST:     CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAG                         CTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
genomic: CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAGgtaatttaag ... ttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
EST: gi|86084593|gb|DR380352.1|DR380352
EST:     CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAG                         CTGAGATCTAGCCGGAACTTCTGTATCSMTATTGTYYTGTTGTGTATTGTT
genomic: CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAGgtaatttaag ... ttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
EST: gi|125279763|gb|EL293848.1|EL293848
EST:     CCAATGTTAGACTTAAAGATACCGTGAACCAG                         CTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
genomic: CCAATGTTAGACTTAAAGATACCGTGAACCAGgtaatttaag ... ttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
EST: gi|116435937|gb|EG478529.1|EG478529
EST:     CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAG                         CTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
genomic: CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAGgtaatttaag ... ttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT
EST: gi|124982167|gb|EL054992.1|EL054992
EST:     CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAG                         CTGAGATCTAGCCGGAACTTCTGTATCG
genomic: CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAGgtaatttaag ... ttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCG
EST: gi|125284447|gb|EL298532.1|EL298532
EST:     CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAG                         CTGAGATCTAGCCGGAACT
genomic: CCTCCGATCTTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAGgtaatttaag ... ttgtttacagCTGAGATCTAGCCGGAACT
EST: gi|125253861|gb|EL267946.1|EL267946
EST:     TTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAG                         CTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATCGTT
genomic: TTAAGAACACCAATGTTAGACTTAAAGATACCGTGAACCAGgtaatttaag ... ttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gccacataggtctgttcttgatacctaatataaaagcattgtcttttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTTCTGGGTATCGCTGCATACTTATACAA
                      acctaat  putative branch site (score: 3)
                                         tcttttgttt  putative PPT
                    atacctaatataaaa  TA-rich tract