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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtatctacccttttctccttccttacagttttggtttttggattccattgtcagatatgcaaccgaggtccacatttctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT

Basic information

species Arabidopsis thaliana
transcript AT4G32530.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G32530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os01g42430.1 (Oryza sativa), 3'ss of exon 3
gtctgtatctacccttttctccttccttacagttttggtttttggattccattgtcagatatgcaaccgaggtccacatttctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
||  | | | | |||| |  | |   |     || ||  |  ||| |  | || ||||||    ||         |  | |     ||||| | ||||| ||||| ||||||||||| ||||||||||| ||||||||||| ||  |||| |||||||||||  | ||||| ||||| ||||| || || 
gtaagcaccaatccttgtgccttatttc----ttgtgtatcatggttcacgttctcagatggttaa---------atttgtgatcggcagGGTTTGTGTGGGAATAATTGGAAGCAGCTGTGCATTGTCTGATGCTCAGAATTCATCACTCTTTGTAAAGATCTTGGTGATTGAGATCTTCGGCAGCGCC

upper sequence: AT4G32530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM5G867882_T01 (Zea mays), 3'ss of exon 3
gtctgtatctacccttttctccttccttacagttttggtttttggattccattgtcagatatgcaaccgaggtccacatttctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
    |||   |||    ||||| || |      | ||||   |  ||||    ||   | |||  |   |  | |  ||||     ||||| ||||||| || || || |||||||| |||||| |||| ||||||||||||||  |||| |||||||||||| | ||||| ||||| ||||| || |||
----gtaggcaccgggctctccatcttgttccctctggtgaatttattctgcagtttcagatg--attaaatttcctattt-----gcagGGTATGTGTGGGGATAATCGGAAGCAGCTGTGCACTGTCTGATGCTCAGAACTCATCACTCTTTGTAAAGATTTTGGTGATTGAGATCTTCGGCAGCGCT

upper sequence: AT4G32530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G143128_T01 (Zea mays), 3'ss of exon 3
gtctgtatctacccttttctccttccttacagttttggtttttggattccattgtcagatatgcaaccgaggtccacatttctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
    |||   ||| |  ||||| || |      | |||    |  ||||    ||   | |||         |  |  | |   || |||| |||| || || || ||||||||||| || ||| |||| ||||||||||||||  |||| || ||||||||| | ||||| ||||| ||||| || |||
----gtaggcaccatgctctccatcttgttccctctggcgaatttattctgcagtttcagatg-------attagatttcttctttacagGGTATGCGTGGGGATAATTGGAAGCAGCTGCGCACTGTCTGATGCTCAGAACTCATCACTCTTCGTAAAGATTTTGGTGATTGAGATCTTCGGCAGCGCT

upper sequence: AT4G32530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA17G31060.1 (Glycine max), 3'ss of exon 3
-----------------------------gtctgtatctacccttttctccttccttacagttttggtttttggattccattgtcagatatgcaaccgaggtccacatttctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
                              |||          || || |  |   | |||  | |  ||||  ||||   | | | || | |||      |      | |||| ||||||| ||||||||||| ||||||||||| ||||||||||| ||||| ||||||||| | || ||||| || ||||||||||||||||| || || ||||| 
gtgtgtattcttttttacctacctctcatatcttggcaggaaattctcccgatgaatgcagggtggccttttccattcttctattacattttcaa------ttttttctgctctggcagGTTGTGTGTAGGAATAATTGGAAGCAGCTGTGCATTGTCTGATGCCCAGAACTCCTCTCTCTTTGTGAAAATTCTTGTGATCGAGATCTTTGGTAGTGCG

upper sequence: AT4G32530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G15360.1 (Glycine max), 3'ss of exon 2
-------gtctg---tatctaccc------ttttctccttccttacagttttggt-ttttggattccattgtcagatatgcaaccgaggtccacatttctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
        ||||   ||||||| |      || || |  |   | |||        ||||  ||||   | | | || | |||      ||| |    |||| ||||||| ||||||||||| ||||||||||| ||||||||||| ||||| ||||||||  | || ||||| || ||||||||||| ||||| || || ||||| 
tttatccatctgtcatatctacgcaggaaattctcccgatgaatgcagagggaaccttttccattcttctattaaatgttcaattt---tcccc----ctctggcagGTTGTGTGTAGGAATAATTGGAAGCAGCTGTGCATTGTCTGATGCCCAGAACTCTTCTCTCTTTGTGAAAATTCTTGTGATTGAGATCTTTGGTAGTGCG

upper sequence: AT4G32530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv04s0008g04760.t01 (Vitis vinifera), 3'ss of exon 3
-------------------gtctgtatctacccttttctccttccttacagttttggtttttggattccattgtcagatatgcaaccgaggtccacatttctcttgca---gGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
                     |  ||  || |  ||  |   |  | | |  | |   ||||| ||||  |||      |   |    |     || ||  ||| |||   |||| |||||||| || ||||||||||| ||||||||||| ||||| || |||||| | |||||||| |||||||| ||||| || ||||| || ||||| 
gttagttccccatttaatttccaataaatatctcttagtggata-tgaaatctataccttttgtattcttttgcttt-cagagagaaaaaaataactttcttctggcaccagGTTGTGTGTAGGGATAATTGGAAGCAGCTGTGCATTGTCGGATGCCCAAAACTCCTCTCTTTTTGTGAAGATTCTGGTGATTGAAATATTTGGTAGTGCA

upper sequence: AT4G32530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0002g05720.t01 (Vitis vinifera), 3'ss of exon 3
gtctgtatctacccttttctcc-----ttcctt-----acagttttggtttttgg---attccatt--gtcagatatgcaaccgaggtccacatttctcttgc-----agGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
|| ||| || | | ||   | |     || |||     ||   | ||  ||       | | ||||  ||   |    |  ||    |  |  ||  | |||      ||||| || |||||||| ||||||||||||||||| || || |||||||| |||||  |||||||||| ||||| |||||||| ||||| || || ||||| 
gtatgtttccagctttccttgcatatatttcttcagaaacgagtatgacttcgcacctaatgcattccgttctaatcacttcccttttttattttctttttgggataaagGTTGTGCGTAGGAATAATTGGAAGCAGTTGTGCTTTATCTGATGCTCAAAACTCATCACTTTTTGTTAAGATCCTTGTGATTGAGATCTTTGGCAGTGCA

upper sequence: AT4G32530.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S96_87V6.1 (Physcomitrella patens), 3'ss of exon 3
---------gtctgtatctacccttttctccttccttacagttttgg-tttttggattccattgtcagatatgcaaccgaggtccacatttctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
          | |  ||     |  || |       |  | | |||  |||||  |     || |    | |          |     ||   || ||||| | || || ||| |||| || ||||| |||||| | || |||||||||||||||||| | ||||| |||||||| || || || || || |||||||| 
aggagggacttataaattagttcaattattgaataatgaaatgttgcctttttctacctttttttttttttttttttttttttttttgttatgctggcagGCTGTGCGTGGGACTCATAGGGAGCAGCTGTGCACTTTCAGATGCTCAGAACTCCACATTGTTTGTCAAGATTCTAGTTATTGAAATCTTTGGGAGTGCG

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|164147629|gb|ES178937.1|ES178937
EST:     AATCTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGG                         GTTATGTGTAAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGC
genomic: AATCTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGGgtctgtatct ... tctcttgcagGTTATGTGTA-GGAATCATTGGAAGCAGTTGTGCATTGTCCGATGC
EST: gi|124757564|gb|EH847694.1|EH847694
EST:     TCGCCAACCTTGTATGCGG                         GTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAA
genomic: TCGCCAACCTTGTATGCGGgtctgtatct ... tctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAA
EST: gi|125005783|gb|EL078052.1|EL078052
EST:     ATAGTTGGATTCGCCAACCTTGTATGCGG                         GTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCG
genomic: ATAGTTGGATTCGCCAACCTTGTATGCGGgtctgtatct ... tctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCG
EST: gi|125256938|gb|EL271023.1|EL271023
EST:     CTAATCTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGG                         GTTATGTGTAGGAATCATTGGAAG
genomic: C-AATCTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGGgtctgtatct ... tctcttgcagGTTATGTGTAGGAATCATTGGAAG
EST: gi|116443834|gb|EG486426.1|EG486426
EST:     GCAATCTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGG                         GTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAA
genomic: GCAATCTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGGgtctgtatct ... tctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAA
EST: gi|125037244|gb|EL109513.1|EL109513
EST:     CTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGG                         GTTATGTGTAGGAATCATTGGAAGCAGTTAGTGCATTGTCCGATGCTCAGA
genomic: CTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGGgtctgtatct ... tctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTT-GTGCATTGTCCGATGCTCAGA
EST: gi|125010745|gb|EL083014.1|EL083014
EST:     CTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGG                         GTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATG
genomic: CTTTGCATCTGGAATTATAGTTGGATTCGCCAACCTTGTATGCGGgtctgtatct ... tctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtttttggattccattgtcagatatgcaaccgaggtccacatttctcttgcagGTTATGTGTAGGAATCATTGGAAGCAGTTGTGCATTGTCCGATGCTCAGAACTCCACACTTTTTGTAAAGATTCTTGTGATCGAGATATTCGGGAGTGCT
                                     tccacatttctctt  CT-rich tract