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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcgtggttttggttttttttcctaatatgaaacagcttactctttgtatcttatatgttctttctataacttcagGGAAAGTGGAGGATTCTACTAAAGTCCAGACTCTTCTCTTCAGTGCTACTTTGCCATCATGGGTGAAAAAT

Basic information

species Arabidopsis thaliana
transcript AT5G62190.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G62190.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G38680.1 (Glycine max), 3'ss of exon 4
-------gtatgtcgtggt-tttggttttttttcctaat--atga------aacagcttactctttgtatcttatatgttct----ttctataactt-cagGGAAAGTGGAGGATTCTACTAAAGTCCAGACTCTTCTCTTCAGTGCTACTTTGCCATCATGGGTGAAAAAT
        | | ||      |||  |  | | |  || |  ||||       | ||  |  | |  ||||   | ||| |||    ||  |||  || |||| || || ||  ||  || |||||| ||||| ||||| ||||||||||||||||||   ||||| ||  | 
ccgaagaatgtttcaaaacgtttcctcatatcttttagtgcatgatgctttgataggatgttttcagtattaca-atgatctcttgtttgatattttgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA

upper sequence: AT5G62190.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G29060.1 (Glycine max), 3'ss of exon 4
-----------gtatg--tcgtggttttggttttttttcctaatatgaa---acagcttactctttgtatcttatatgttctttctataac----ttcagGGAAAGTGGAGGATTCTACTAAAGTCCAGACTCTTCTCTTCAGTGCTACTTTGCCATCATGGGTGAAAAAT
           ||||    |    |||    ||  ||  ||| | |      | ||  |  | |  ||| |  |   ||   || | | |     | |||| || || ||  ||  || |||||| ||||| ||||| ||||||||||||||||||   ||||| ||  | 
ctttgcaattagtattacccaaaatttcatgttcattcactattgttggatgataggatgttttcagtaacacaatggtctcttgtttgatattttgcagGCAAGGTAGAAAATGTTAATAAAGTTCAGACACTTCTTTTCAGTGCTACTTTGCCAGACTGGGTTAAGCAA
















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|125023399|gb|EL095668.1|EL095668
EST:     TGATGAAATGTTGAGGATGGGATTTGTTGAGGATGTTGAACTTATTTTAG                         GGAAAGTGGAGGATTCTACTAAAGTCCAGACT
genomic: TGATGAAATGTTGAGGATGGGATTTGTTGAGGATGTTGAACTTATTTTAGgtatgtcgtg ... ataacttcagGGAAAGTGGAGGATTCTACTAAAGTCCAGACT
EST: gi|47828150|gb|CK117834.1|CK117834
EST:     TGATGAAATGTTGAGGATGGGATTTGTTGAGGATGTTGAACTTATTTTAG                         GGAAAGTGGAGGATTCTACTAAAGTCCAGACTCTTCTCTTCAGTGCTACTT
genomic: TGATGAAATGTTGAGGATGGGATTTGTTGAGGATGTTGAACTTATTTTAGgtatgtcgtg ... ataacttcagGGAAAGTGGAGGATTCTACTAAAGTCCAGACTCTTCTCTTCAGTGCTACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctaatatgaaacagcttactctttgtatcttatatgttctttctataacttcagGGAAAGTGGAGGATTCTACTAAAGTCCAGACTCTTCTCTTCAGTGCTACTTTGCCATCATGGGTGAAAAAT
                                     ttctttctat  CT-rich tract
                      tttgtatcttatat  TA-rich tract