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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcttctatatttggtttcatgtgtctaaccttgtgcctgatttgtgatctctcttttgatacgaccattcttaaaaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCTTTTCACACAGTCTCTAAAGGATATTGGGGTGAATGTGGACAGCGAGGTG

Basic information

species Arabidopsis thaliana
transcript AT1G23310.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G23310.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os07g01760.1 (Oryza sativa), 3'ss of exon 6
-----------gttagcttctatatttggtttcatgtgtctaacc--ttgtgcctgatttgtgatctctctt-ttgatacgaccattcttaaaaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCTTTTCACACAGTCTCTAAAGGATATTGGGGTGAATGTGGACAGCGAGGTG
            | || || |    |    || ||   | | | |  ||||     |||  ||||  ||  | || | | |  | |||| ||    |   ||||| || | || |||||| | ||  | |||| |||||||||||| || ||||| || || || || |||||||||||||| || |||||||| || || |
ataactaatacatgagtttatgccctaatattgattactttgatcaattgtaaactattc-tgattgctgatgttaacatggactttctcaatttctt-cagGTTCTGTTTGACATGGGTCCTCCTATGAGCAGGGAAGTTCAGCTGGTTTCTTTCCATACTGTGTCAAAAGGATATTGGGGGGAGTGTGGACAACGTGGAG

upper sequence: AT1G23310.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G04320.3 (Glycine max), 3'ss of exon 8
gttagctt-ctatatt-tggtttcatgtgtctaaccttgtgcctgatttgtgatctctcttttgatacgaccattcttaaaaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCTTTTCACACAGTCTCTAAAGGATATTGGGGTGAATGTGGACAGCGAGGTG
||  ||||  | |  |   |          || |  || ||||| | |||| |        |    |     | | ||  | |     |||||||||||||| ||||  | ||  | |||||||||||||||||| | ||||||||| | || || ||||| ||||  ||||||||||||||||||||||
gtatgcttgttgtgctgcagcgctggtaaactgatattttgcctcagttgttaatgtgaactaataatatatacttttctacacgagaagGTTTTGATGGAATTGGGGCCACCTATAAGCAAGGAAGTTCAGCTTATTTCTTTTCACTCTGTGTCAAAAGGTTATTATGGTGAATGTGGACAGCGAGGTG

upper sequence: AT1G23310.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA01G03260.3 (Glycine max), 3'ss of exon 8
gttagctt-ctatatttggtttcatgt--gtctaaccttgtgcctgatttgtgatctc--tcttttgatacgaccattcttaaaaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCTTTTCACACAGTCTCTAAAGGATATTGGGGTGAATGTGGACAGCGAGGTG
||  ||||  | |  |     |  ||     || |  || ||||| | |  | |       ||  | |||    | || |  | |    | |||||||||||||  ||||  | ||  | ||||||||||| |||||| | ||||||||| | || || ||||| ||||  ||||||||||||||||||||||
gtatgcttgttgtgctgcagctgctgctaaactgatattttgcctcagtcattaatgtgaactaataatatatactttttctacatgaga-agGTTTTGATGGACTTGGGGCCACCTATAAGCAAGGAAGTCCAGCTTATTTCTTTTCACTCCGTGTCAAAAGGTTATTATGGTGAATGTGGACAGCGAGGTG

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|124722577|gb|EH813979.1|EH813979
EST:     CAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: CAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|124711979|gb|EH803381.1|EH803381
EST:     CAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: CAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|124907335|gb|EH981415.1|EH981415
EST:     ATCAGCAGAACATATACCAGGATGAGTGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGG
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGG
EST: gi|125293359|gb|EL307444.1|EL307444
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAG
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAG
EST: gi|125066645|gb|EL133449.1|EL133449
EST:     TACCAGGATTGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTAT
genomic: TACCAGGA-TGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTAT
EST: gi|124945653|gb|EL021641.1|EL021641
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTT
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTT
EST: gi|125304830|gb|EL318915.1|EL318915
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGG
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGG
EST: gi|125266147|gb|EL280232.1|EL280232
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAG
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAG
EST: gi|125290841|gb|EL304926.1|EL304926
EST:     AGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: AGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|301502125|gb|HO207665.1|HO207665
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|125082250|gb|EL143189.1|EL143189
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAG
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAG
EST: gi|86074135|gb|DR369892.1|DR369892
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|116434562|gb|EG477154.1|EG477154
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|124999979|gb|EL072248.1|EL072248
EST:     CAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: CAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|116482910|gb|EG525502.1|EG525502
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|125063217|gb|EL131276.1|EL131276
EST:     TATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTT
genomic: TATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTT
EST: gi|86074134|gb|DR369891.1|DR369891
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|124750663|gb|EH840793.1|EH840793
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCC
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCC
EST: gi|125322079|gb|EL336164.1|EL336164
EST:     GATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAG
genomic: GATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAG
EST: gi|125022910|gb|EL095179.1|EL095179
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAG
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAG
EST: gi|86074114|gb|DR369871.1|DR369871
EST:     ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: ATCAGCAGAACATATACCAGGATGAGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
EST: gi|125093797|gb|EL151336.1|EL151336
EST:     AGCGTCCCTTTATCAGCTCCAAGAAG                         GTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT
genomic: AGCGTCCCTTTATCAGCTCCAAGAAGgttagcttct ... aaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtgcctgatttgtgatctctcttttgatacgaccattcttaaaaaatcatagGTTTTGATGGAAATGGGTTCGCCGTTCAGCAAGGAAGTTCAGCTTGTATCTTTTCACACAGTCTCTAAAGGATATTGGGGTGAATGTGGACAGCGAGGTG
                        ttttgat  putative branch site (score: 4)
                                     attcttaaaaaatcat  TA-rich tract