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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttttaaaaaaaaacataatttagcaacacacatccccccatgtctaaattcaaacaaggttttgaagtctaatgagttctgttttttggtgttttttgttttttgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATAGAAAGTATCCGACTGGTCTGAGGACTAACCGAGCAACTCAAGCCGGTTA

Basic information

species Arabidopsis thaliana
transcript AT5G07680.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G07680.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G21020.1 (Glycine max), 3'ss of exon 1
---------------------------------------------------gtaggttttaaaaaaaaacataatttagcaacacacatccccccatgtctaaattcaaacaaggttttgaagtctaatga-gttctgttttttg-gtgttttttgttttttgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATAGAAAGTATCCGACTGGTCTGAGGACTAACCGAGCAACTCAAGCCGGTTA
                                                    | || ||  ||| | |   |  | |  ||||      ||   ||     ||||  |   |  || |     | | || |  || |||| | ||  |||||||| |||||||    ||||  || || ||||| || |||||||| ||||||||||||||||||||||| ||||| || || |||||| ||||||||||  |||| ||| || | || ||
gtaagttcaaaacaaaattaaaaaattcagccccactttggttttggtttatttggcttctaaatatatttttgtcttacaacgaga--ccatacagactcaaatatattaattgtgtaagtttattataacattatgttgtgtgcatgttttttattttttgggttacagGGAAGGCCAAAATGGGAGAGAAAGAGTGGTACTTTTTCTGTGTGAGGGACAGAAAATACCCAACTGGTTTGAGGACTAATAGAGCCACTGAATCAGGATA

upper sequence: AT5G07680.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA04G33270.1 (Glycine max), 3'ss of exon 1
------------------------------------------------------------------gtaggttttaaaaaaaaacataatttagcaacacacatccccccatgtctaaattc-aaacaaggttttgaagtctaatgagttctgttttttggtgt-tttttgttttttgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATAGAAAGTATCCGACTGGTCTGAGGACTAACCGAGCAACTCAAGCCGGTTA
                                                                  || |  ||  ||  | | ||||      ||      |||||   |     | |||| ||| |   |  |   ||    | | |     ||| || ||| |   | |||||||  | ||||  ||||| ||||| || |||||||| |||||||||||||||||||| || ||||| || || |||||| ||||||||||  |||| |||||| | || ||
gtaagttcaaaacaaaatgaaaaaattcagccccactttggttttggttatttggcttctaaatatgttgtcttacaatgagaccata--cggacagattcgatcccgatacaaaaacattctaaatatattgattgtgtaagtttattataactttatgttgtgtgcattttttttgggatacagGGAAAGCTAAAATGGGAGAGAAAGAGTGGTACTTTTTCTGTGTGAGAGACAGAAAATACCCAACTGGTTTGAGGACTAATAGAGCCACTCAATCAGGATA
















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|164000408|gb|ES134117.1|ES134117
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGACAAAA-TTGGTGAGAAAGAATGGTACTTTTTCTGTG
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAG-CAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTG
EST: gi|86042217|gb|DR337972.1|DR337972
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
EST: gi|164148665|gb|ES196529.1|ES196529
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTG
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTG
EST: gi|164011069|gb|ES196348.1|ES196348
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGCAAAA-TTGGTGAGAAAGAATGGTACTTTTTCTGTG
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTG
EST: gi|86042218|gb|DR337973.1|DR337973
EST:     GCTATTGGTGAGGTTKATTTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAWAGCAAAA-TTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
genomic: GCTATTGGTGAGGTTGATTT-GAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
EST: gi|19875102|gb|AU235933.1|AU235933
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
EST: gi|164133766|gb|ES198112.1|ES198112
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGACAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTG
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAG-CAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTG
EST: gi|86042223|gb|DR337978.1|DR337978
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
EST: gi|86042222|gb|DR337977.1|DR337977
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
EST: gi|164055788|gb|ES200573.1|ES200573
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGACAAAAATTGGTGAGAAAGAATGGTACTTTT-CTGTG
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAG-CAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTG
EST: gi|86042224|gb|DR337979.1|DR337979
EST:     AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCAT                         ATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA
genomic: AGCTATTGGTGAGGTTGATTTGAACAAAGCTGAGCCATGGGAGTTGCCATgtaggtttta ... tgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttttgaagtctaatgagttctgttttttggtgttttttgttttttgttaaacagATAAAGCAAAAATTGGTGAGAAAGAATGGTACTTTTTCTGTGTGAGGGATAGAAAGTATCCGACTGGTCTGAGGACTAACCGAGCAACTCAAGCCGGTTA
        gtctaat  putative branch site (score: 3)
                                 ttttttgttttttgtt  putative PPT
                               tgttttttgttttttg  TA-rich tract