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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgtgagaagtgacatggcttgctttactttctaagtttgagtagaggattttcttggccttacaataacagaatacgtatactcttaccttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAAATTTGTGGTGATAATTTCCCTCAATGGATATCGTTTCCAGCATTTGAAC

Basic information

species Arabidopsis thaliana
transcript AT3G61050.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G40290.1 (Glycine max), 3'ss of exon 2
tgtgtgagaagtgacatg-gcttgctttactttctaagtttgagtagaggattttcttggccttacaataacagaatacgtatactcttaccttctg-acagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAAATTTGTGGTGATAATTTCCCTCAATGGATATCGTTTCCAGCATTTGAAC
|||||  |        || |  ||  |   | | ||  | |  ||| |    | | |    ||||   |         |  || ||      ||||  |||||||||||| || ||||| || || || |||| |||||| ||||| |||||||| ||||| |||||||| ||| |||||||||| |||||   || ||| |
tgtgtatgtgtgtgtgtgtgtgtgtgtgtgtgtatacatatatgtatatatatgtat--atcttattttccttatcctcacattcttcatttttctctacagGCAGTTGACATTAAACTCCTTGGGTCCCTTAACAGAGATGATTTAAAGAAAATCTGTGGGGATAATTTTCCTGAATGGATATCTTTTCCCATATATGAGC

upper sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G45720.1 (Glycine max), 3'ss of exon 1
-------tgtgtgagaagtgacatggcttgctttac-tttctaagtttgagtagaggattttcttggccttacaataacagaatacgtatactcttaccttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAAATTTGTGGTGATAATTTCCCTCAATGGATATCGTTTCCAGCATTTGAAC
       | | |    |   | ||   |   | ||  | | ||  | |   || |  ||||| ||  |||||   |||||         |  || |   |  | |||||||||||| || || || || || || |||| |||||| ||||| |||||||||||||| |||||||| ||| |||||||||| ||||| | || ||| |
atatatatatatatatatatatatatatatatatatatatatatatatatatatattattttattttccttatcttaacat--------tcttcatttttctttacagGCAGTTGACATTAAGCTCCTTGGGTCCCTTAACAGAGATGATTTAAAGAAAATTTGTGGGGATAATTTTCCTGAATGGATATCTTTTCCTGTATATGAGC

upper sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G09070.1 (Glycine max), 3'ss of exon 2
tgtgtgagaagtgacatggcttgctttactttctaagtttgagtagaggattttcttggc----cttacaataacagaatacgtatactcttaccttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAAATTTGTGGTGATAATTTCCCTCAATGGATATCGTTTCCAGCATTTGAAC
    | ||  |||   |    || |    |||   | ||  |  |  |   | | ||  |     ||    |  |  |||    ||  | |       |  ||||||| ||| || ||||| || || || ||||  ||||| ||||||||||||||||||||||||||||| ||| | |||||||| ||||| | || |||||
----taagttgtgttctaagctgttcatattttctatttaaaaaattgtcctgttttaacaatttttttcttgtcttaatgttcattatttatttgctttgcagGCAGCTGACATTAAACTCCTTGGATCCCTTAATAGAGATGATTTGAAGAAAATTTGTGGTGATAATTTGCCTGAGTGGATATCTTTTCCTGTATATGAAC

upper sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA03G02370.2 (Glycine max), 3'ss of exon 1
tgtgtgagaagtgacatggcttgctttactttctaagtttgagtagaggattttcttggc----cttacaataacagaatacgtatactcttaccttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAAATTTGTGGTGATAATTTCCCTCAATGGATATCGTTTCCAGCATTTGAAC
    ||||  |||   |    || |    |||   | ||  |  |  |  |  | ||  |     ||    |  |  |||    ||  | |       |  ||||||| ||| || ||||| || || || |||| |||||| ||||| ||||||||||||||||||||||| ||| | |||||||| ||||| | || |||||
----tgagttgtgttctaagctgttcatattttctatttaaaaaaatgtctggttttaacattttttttcttgtcttaatgttcattatttatttggtttgcagGCAGCTGACATTAAACTCCTTGGATCCCTTAACAGAGATGATTTAAAGAAAATTTGTGGTGATAATTTGCCTGAGTGGATATCTTTTCCTGTATATGAAC

upper sequence: AT3G61050.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv15s0048g01410.t01 (Vitis vinifera), 3'ss of exon 2
tgtgtgagaagtgacatggcttgctttactttctaagtttgagtagaggattttcttg-gccttacaataacagaatacgtatactcttacctt-ctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAAATTTGTGGTGATAATTTCCCTCAATGGATATCGTTTCCAGCATTTGAAC
  |      | | | ||      | | |     ||  ||| | |       |  ||||  ||||    | |    || | | |  | | |  || || ||||||||||||||| ||||| || || || |||| |||||| ||||||||||||||||||||||||||||| ||| |||||||||| || || |  | |||||
--ttaatttatttaaattatactcctaaggaattatttttcacttcccagatgacttgtaccttgttctgatcccattcatttcatttcatttttctcacagGCAGTTGATATAAAACTCCTTGGATCCCTTAACAGAGAAGATTTGAAGAAAATTTGTGGTGATAATTTTCCTGAATGGATATCTTTCCCTGTGTATGAAC

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|125051286|gb|EL123555.1|EL123555
EST:     CTGGCTGGAGTCGTATGATGACTCACCGATCGTCCAAGCGAGTCGCCAAG                         GCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTT
genomic: CTGGCTGGAGTCGTATGATGACTCACCGATCGTCCAAGCGAGTCGCCAAGgttcgattaa ... cttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTT
EST: gi|116380658|gb|EG423250.1|EG423250
EST:     CTGGCTGGAGTCGTATGATGACTCACCGATCGTCCAAGCGAGTCGCCAAG                         GCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAA
genomic: CTGGCTGGAGTCGTATGATGACTCACCGATCGTCCAAGCGAGTCGCCAAGgttcgattaa ... cttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAA
EST: gi|125253713|gb|EL267798.1|EL267798
EST:     TGACTCACCGATCGTCCAAGCGAGTCGCCAAG                         GCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAA
genomic: TGACTCACCGATCGTCCAAGCGAGTCGCCAAGgttcgattaa ... cttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAA
EST: gi|19874467|gb|AU235298.1|AU235298
EST:     CTGGCTGGAGTCGTATGATGACTCACCGATCGTCCAAGCGAGTCGCCAAG                         GCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAA
genomic: CTGGCTGGAGTCGTATGATGACTCACCGATCGTCCAAGCGAGTCGCCAAGgttcgattaa ... cttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaggattttcttggccttacaataacagaatacgtatactcttaccttctgacagGCAGTTGATATGAAACTACTAGGCTCTCTTAGCAGAGACGATTTGAAGAAAATTTGTGGTGATAATTTCCCTCAATGGATATCGTTTCCAGCATTTGAAC
                                    tactcttaccttct  CT-rich tract
                ttacaataa  TA-rich tract