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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTGgtatgtatgattttttttttctcccaatattttttttatctctcctttgtgactgttcttaaatcaactgtaatcacaaccatgaaaagctaacttatcttccaacatacatttttcatttttgttgttcattcattggctttcgctgaatgttcctgtttctggcttctttttcttgaag

Basic information

species Arabidopsis thaliana
transcript AT2G19880.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G19880.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g67870.1 (Oryza sativa), 5'ss of exon 5
GATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTGgtatgtatgattttttttttctcccaatattttttttatctctcctttgtgactgttcttaaatcaactgtaatcacaaccatgaaaagctaacttatcttccaacatacatttttcatttttgttgttcattcattggctttcgctgaatgttcctgtttctggcttctttttcttgaag
||  |  | || || ||||| || || |||||  | ||||||||||||||||||||||| ||||||||||| ||| |||  ||   ||  ||||| |  |   | | |||||    |||| | ||| | |  |  |  |   ||   |    |||   || |  |  ||  | |                                                                               
GACAAGTTGGAGGCAAAGGTGGTTGTAGCTGGGCTCTCAACAACATGTAGCCAGAAAATCCATAATCAGTTAgtacgta-aatcacttcattctcgcccttgatgtgttatc----ctttttcactatgcaaagctggagcttatcta-ggtcattctaaacacatgtacttgcatgt---------------------------------------------------------------------------

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G061419_T01 (Zea mays), 5'ss of exon 5
GATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTGgtatgt--atgattttttttttctcc-caatattttttttatctctcctttgtgactgttcttaaatcaactgtaatcacaaccatgaaaagctaacttatcttccaacatacatttttcatttttgttgttcattcattggctttcgctgaatgttcctgtttctggcttctttttcttgaag
||  || | || || ||||| || |||||||| || |||||||| ||||||||||||||||| ||||| ||||| |||  |||| ||| |||   ||| | || | | ||| ||      ||  ||||    || ||  |   | |   |  |  | || | |  |  ||  | |                                                                                 
GACAATCTGGAGGCAAAGGTGGTCGTTGCTGGGTTGTCAACAACCTGTAGCCAGAAAATTCACAATCAATTGgtttgtaaatgactttgtttccatcctcgatgtctatttcatggtctgttcatgaca---ctgaatgctcattttggcttatgcttgtagatgttcctagtgt---------------------------------------------------------------------------------

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G03760.1 (Glycine max), 5'ss of exon 5
GATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTGgtatgtatgattttttttttctcccaatattttttttatctctcctttgtgactgttcttaaatca-actgtaatcacaaccatgaaaagctaacttatcttccaacatacatttttcatttttgttgttcattcattggctttcgctgaatgttcctgtttctggcttctttttcttgaag
|||||||||||||||||||| || || |||||||| |||||||| ||||| || |||||||| ||||| |||||||  | |||||| ||    |    ||||||   |  | | | |    ||  |   |||    ||  || || ||| |||           | ||| ||||||   |||  ||||                                                                  
GATCATGTTGAAGCTAAGGTTGTTGTAGCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTGgtat--aggattttgttgacat----atatttcgatagttttttcaaaatg--tagccttgggccatgctatattcagaact--------taaccttgtcttcctttatatttttt------------------------------------------------------------------

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA05G35860.1 (Glycine max), 5'ss of exon 4
GATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTGgtatgtatgattttttt----tttctcccaatattttttttatctctcctttgtgactgttcttaaatca-actgtaatcacaaccatgaaaagctaacttatcttccaacatacatttttcatttttgttgttcattcattggctttcgctgaatgttcctgtttctggcttctttttcttgaag
|||||||||||||||||||| || ||  ||||||| |||||||| ||||| || |||||||| ||||| ||||||||   |||||| ||    | | |    ||| |||||||| ||      |||  |    |||    ||  || || ||| | |           | | ||||||||   |||                                                                        
GATCATGTTGAAGCTAAGGTTGTTGTATCTGGTTTGTCAACAACTTGTAGTCAAAAAATTCACAATCAATTGgtatgg--gattttgttgacatatattttgatagtttttttaactacaaaatgtagc----cttgggccatgctatattcagagct--------taaccatatcttcctttata------------------------------------------------------------------------

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA01G01130.1 (Glycine max), 5'ss of exon 4
GATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTGgtatgtatgattttttttttctcccaatattttttttatctctcctttgtgactgttcttaaatcaactgtaatcacaaccatgaaa--agctaacttatcttccaacatacatttttcatttttgttgttcattcattggctttcgctgaatgttcctgtttctggcttctttttcttgaag
|||  |||| |||||| | |  |  | ||||||||||||||||| ||||| || |||||||| ||||| ||||||||  |   || || |   |  |  || | |||| |  |      |  | |  | ||  | |  |     ||    |  |||| |   ||| | | ||                                                                                   
GATTCTGTTAAAGCTAGGATTATAATAGCTGGTTTATCAACAACTTGTAGTCAAAAAATTCACAATCAATTGgtatgattttattcttatactttgccctagtattttcaaatgcaaagtagggccatactatatttgaaacatattttcattatgacacttgctgattcat-----------------------------------------------------------------------------------

upper sequence: AT2G19880.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G08510.1 (Glycine max), 5'ss of exon 4
GATCATGTTGAAGCTAAGGTCGTGGTTGCTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTGgtatg-tatgattttttttttctcccaatattttttttatctctcctttgtgactgttcttaaatcaactgtaatcacaaccatgaaaagctaacttatcttccaacatacatttttcatttttgttgttcattcattggctttcgctgaatgttcctgtttctggcttctttttcttgaag
|||  |||| |||||| |||  | || ||||||||||||||||| || || || |||||||| ||||| |||||||| | | ||| || |  | |  |  ||| | |  |||  | | |   |||    |||||| |    |  | | || |     ||||  |||  ||| |                                                                                 
GATTCTGTTAAAGCTAGGGTTATAGTAGCTGGTTTATCAACAACTTGCAGTCAAAAAATTCACAATCAATTGgtatgattttattcttatactttgtccttatatatactatgacacttgc-tgatgcatcttaatt--gtttaattgactagttgaaaaacataatctatataa-------------------------------------------------------------------------------

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|164173459|gb|ES197758.1|ES197758
EST:     GGTTGCTTGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTG                         ATTGGAGTTGAAAAAATGCACAAAGATACCAAATATGTGTTAT
genomic: GGTTGC-TGGTTTATCAACAACATGTAGCCAGAAAATTCATAATCAGTTGgtatgtatga ... tttcttgaagATTGGAGTTGAAAAAATGCACAAAGATACCAAATATGTGTTAT