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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAGgtaaataaacacttctcaaaccaattgggacataatgtaactaagctcaagtgtattcaatttctgatcaaagatttgatggttgttttgatag

Basic information

species Arabidopsis thaliana
transcript AT4G14680.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G38760.1 (Glycine max), 5'ss of exon 4
GTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAGgtaaataaacac-ttctcaaaccaattgggacataatgtaactaagctcaagtgtattcaatttctgatcaaagatttgatggttgttttgatag------
|||||||| || || ||||| || || || ||||| |||||||| || |||||| ||||||||||| ||||||| || ||||| |||||| ||  |    |||||  |  ||      | |  ||||  |  | |  ||   ||    ||| || |   |  ||| ||   |     |  |       
GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAGgtatatttatttgttctctgaataac-aaaccttggtgtagtttggtttgagaaaatgttgtttatgttttcacttttaattactaaaacgtcaccttatt

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G28980.1 (Glycine max), 5'ss of exon 4
GTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAGgtaaataaacacttctcaaaccaa---ttgggacataatgtaactaagctcaagtgtattcaatttctgatcaaagatttgatggttgttttgatag-------
|||||||| || || ||||| || || || ||||| |||||||| || |||||| ||||||||||| ||||||| || ||||| |||||  ||  |  ||    | | |||   |||| |  | | | || ||   |    | | |||| ||| || |  ||  | | ||   |    ||  |        
GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAGgtgcatttatcctctgaataacaaaccttggaatttga-gaaaatattttt---tattttcattttatgttttaacttctaattactaaaatgtcaccttattt

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 4
GTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAGgtaaataaacacttctcaaaccaa---ttgggacataatgtaactaagctcaagtgtattcaatttctgatcaaagatttgatggttgttttgatag---------
|||||||| || || ||||| || || || ||||| |||||||| || |||||| ||||||||||| ||||||| || ||||| |||||  ||  |  ||    | | |||   |||| |  | | | || ||   |    | | |||| ||| || |  ||  | | ||   |    ||  |          
GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAGGTgcatttatcctctgaataacaaaccttggaatttga-gaaaatattttt---tattttcattttatgttttaacttctaattactaaaatgtcaccttattttt

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv05s0020g04210.t01 (Vitis vinifera), 5'ss of exon 4
GTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAGgtaaataaac-acttctcaaaccaattgggacataatgtaactaagctcaagtgtattcaatttctgatcaaagatttgatggttgttttgatag-----------------------------------------------------------------------
|||||||| || ||||| || ||    || ||||| ||||||||||||||||||||||| |||||| | ||||| |||||||| |||||| ||      | |   |||  |||   ||| |  | |   | |  |||  | || | |   ||  |  |||    |||   || ||  ||  |                                                                       
GTTGCTGCATATGATAAAACTCAGAATAAAATGGCATTCTTTGATCCCTCAAGGGCTCAAGACTTCCTCTTCATATCTGGCACAAAGgtatattttttgcataggaaaaaaatgcagacctctttt--tttatttcatatctaatgataatccca--aaatggctgaaaattattcagactgggcatgcatttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttgcag

upper sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: PP1S331_37V6.1 (Physcomitrella patens), 5'ss of exon 6
GTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAGgtaaataaacacttctcaaaccaattgggacataatgtaactaagctcaagtgtattcaatttctgatcaaagatt-------tga---tggttgttttgatag------------
||||| || ||||| || ||  |  |  ||||||| ||||| ||||| || ||||| |||||||| |||||||||||||| || |||||   ||      |||    |  | || | | || |     |       |  ||  ||  ||||    || |  |        |||   ||||  || ||  |             
GTTGCGGCTTACGACAAAACGAAGAGTCAGATGGCATTCTTCGATCCATCCAGGGCGCAGGACTTTTTGTTCATTTCTGGTACCAAGgtgtgta----tctcttgcccttagtgtgtcctactcggcttccttcttacagttctctttttcctgccagaattcgtctttctgaacgtggtcattatgccaaacgtttacgcag

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|47830057|gb|CK119741.1|CK119741
EST:     TCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAG                         ATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGC
genomic: TCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAGgtaaataaac ... gttttgatagATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGC