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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttttaaacaaatttatacaacataaaaaataacatttcactgaatcaaaatctaacattcatacttttgcgaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAATCCATCCCCATAACACTATGGTTGTCTCTAGCTCCTGTTGTTCTTG

Basic information

species Arabidopsis thaliana
transcript AT5G46110.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G46110.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G083344_T02 (Zea mays), 3'ss of exon 5
gtattttttaaacaaatttatacaacataaaaaataacatttcactg----------aatcaaaatctaacattcatacttttgcgaa----aacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAATCCATCCCCATAACACTATGGTTGTCTCTAGCTCCTGTTGTTCTTG
||  || |   | || || ||     ||    | ||  ||  | ||           | |     |   |  ||   | |||| | ||    ||| |||| || |||||||||||||||||||||||||| || || ||  | |||||| |  | ||  | ||||| ||| |||||||                 
gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagTTTTACAAATTACAACACAGCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTT----------------

upper sequence: AT5G46110.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G083344_T03 (Zea mays), 3'ss of exon 5
gtattttttaaacaaatttatacaacataaaaaataacatttcactg----------aatcaaaatctaacattcatacttttgcgaa----aacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAATCCATCCCCATAACACTATGGTTGTCTCTAGCTCCTGTTGTTCTTG
||  || |   | || || ||     ||    | ||  ||  | ||           | |     |   |  ||   | |||| | ||    ||| |||| || |||||||||||||||||||||||||| || || ||  | |||||| |  | ||  | ||||| ||| ||||||| | ||| || ||  |||
gtgattctatgataagttgattttctatttctattattatccctctacctcctgtttacttgtgctaagatgtttccagttttacaaattacaacacagCTCTCGAGCCATTCTTCAATGCGGCTGCTTCCCAGTTTATCCTTGGACAACCAGTTCCATTGACACTCTGGCTGTCTCTTGTTCCAGTGGTGATTG

upper sequence: AT5G46110.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv10s0003g00300.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------gtattttttaaacaaatttatacaacataaaaaataacatttcactgaatcaaaatctaacattcata---cttttgcgaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAATCCATCCCCATAACACTATGGTTGTCTCTAGCTCCTGTTGTTCTTG
                                                    |||| |  || ||  ||  |    | |   | | |   || ||||   | ||  |||  |||  |||   |||||         |||| ||||| || ||||||||||| || ||||||||||| ||  | ||||| || || ||| |||| |||||| | ||||| || |||||||||||||
gtgacagaaatctatatgattatacagtgttatagaaaagcattaactccactattgtccaagcatgttatttt--cttgttatacagt-ttacactacttaaatctctgtcatctataatgcttttattttgtttcagCTCTTGAACCCTTCTTCAATGCTGCGGCTTCTCAATTTATACTAGGACAGTCGATACCCTTAACCCTATGGCTATCTCTGGCCCCTGTTGTTCTTG

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|125228180|gb|EL242265.1|EL242265
EST:     CACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: CACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|125139124|gb|EL178053.1|EL178053
EST:     TGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCAT
genomic: TGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCAT
EST: gi|125097250|gb|EL153770.1|EL153770
EST:     CAATGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCA
genomic: CAATGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCA
EST: gi|125321259|gb|EL335344.1|EL335344
EST:     CGGTTGCTGTCNCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: CGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|125141980|gb|EL179481.1|EL179481
EST:     CGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: CGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|125277958|gb|EL292043.1|EL292043
EST:     ACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: ACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|125036138|gb|EL108407.1|EL108407
EST:     TCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAA
genomic: TCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAA
EST: gi|125316820|gb|EL330905.1|EL330905
EST:     TTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: TTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|116415580|gb|EG458172.1|EG458172
EST:     CAATGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGTTGCTTCTCAATTCATTATGGGACAAT
genomic: CAATGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|164076612|gb|ES153235.1|ES153235
EST:     TGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: TGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|125277250|gb|EL291335.1|EL291335
EST:     CGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGG-ACAAT
genomic: CGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|124948183|gb|EL023966.1|EL023966
EST:     CACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAA
genomic: CACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAA
EST: gi|116420927|gb|EG463519.1|EG463519
EST:     CAATGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: CAATGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|164216905|gb|ES020319.1|ES020319
EST:     GTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: GTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|164051102|gb|ES142885.1|ES142885
EST:     CTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
genomic: CTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAAT
EST: gi|125050786|gb|EL123055.1|EL123055
EST:     CTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGG
genomic: CTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGG
EST: gi|124909095|gb|EH983175.1|EH983175
EST:     CGCTGCGGTTGCTGTCTCCTTCACNCACACCATCAAAG                         CACTTGAGCCATTCTTCAATG
genomic: CGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATG
EST: gi|125066608|gb|EL133422.1|EL133422
EST:     CAATGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAG                         CACTTGAGCCATTCTTCAATG
genomic: CAATGTCTCTTTCGCTGCGGTTGCTGTCTCCTTCACTCACACCATCAAAGgtatttttta ... gaaaacgcagCACTTGAGCCATTCTTCAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaataacatttcactgaatcaaaatctaacattcatacttttgcgaaaacgcagCACTTGAGCCATTCTTCAATGCGGCTGCTTCTCAATTCATTATGGGACAATCCATCCCCATAACACTATGGTTGTCTCTAGCTCCTGTTGTTCTTG
                        atctaac  putative branch site (score: 2)
                 aatcaaaat  TA-rich tract