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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACAACCACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACGgtatgcactcaactgtggtgacagagggatcctttctaatattgacgtaattttccatgctctttttttgtggtttcatagtcaacatctaggtcactgt...

Basic information

species Oryza sativa
transcript LOC_Os12g40830.1
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g40830.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G069758_T01 (Zea mays), 5'ss of exon 10
GAACAACCACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACGgtatgcactcaact----gtggtgacagagggatcctttctaatattg-acgtaattttccatgctctttttttgtggtttcatagtcaacatctaggtcactgt
|||||||  |||||||||||||||||||||||||| |||||||||||||||||||||||||   |  | ||     |  |  |    | | | | |  |||   |   | | |     ||    || |||| | ||    |  |    ||    ||      
GAACAACAGCCAGAACAATTTAAGATTGAGATACCAAAGATACCTGCATATTTCACGgtatatccatatctctttattctttcgctagaaacttctagaatggagtgtggagtacggaatatgattgttttattgtagattgattcttataggagtt-----

upper sequence: LOC_Os12g40830.3 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv14s0006g01660.t01 (Vitis vinifera), 5'ss of exon 10
GAACAACCACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACGgtatgca--------ctcaactgtggtgacagagggatcctttctaatattgacgtaattttccatgctctttttt-tgtggtttcatagtcaacatctaggtcactgt
|  ||  | || || ||||| ||||||| ||| ||||| || ||||||||||||||||||||||        || |    |       | ||||   ||     | ||    |    |  || | |||| ||| | |  |   ||   |    | |          
GGTCATTCTCCTGACCAATTCAAGATTGTGATGCCCAAAATTCCTGCATATTTCACGgtatgcatattcttccttattcctcccacttgtgggacttttatggttgtttctatgggatggcaagatcttatttatatattaaaattacctttttttg---------
















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|568331|gb|D39176.1|D39176
EST:     CACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACG                         GGGCACTGGAGATTTAACAACTG
genomic: CACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACGgtatgcactc ... tgctttgcagGG-CACTGGAGATTTAACAACTG
EST: gi|427643|gb|D23776.1|D23776
EST:     CACCAGAACAATTTAAGATTGNGATACCCAAGATACCTGCATATTTCACG                         GGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGNGTAAT
genomic: CACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACGgtatgcactc ... tgctttgcagGGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGAGTAAT
EST: gi|86885325|gb|CI317085.1|CI317085
EST:     ATACCTGCATATTTCACG                         GGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGAGTAAT
genomic: ATACCTGCATATTTCACGgtatgcactc ... tgctttgcagGGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGAGTAAT
EST: gi|13165352|gb|AU174149.1|AU174149
EST:     CACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACG                         GGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGAGTAAT
genomic: CACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACGgtatgcactc ... tgctttgcagGGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGAGTAAT
EST: gi|89185094|gb|CI049640.1|CI049640
EST:     CACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACG                         GGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGAGTAAT
genomic: CACCAGAACAATTTAAGATTGAGATACCCAAGATACCTGCATATTTCACGgtatgcactc ... tgctttgcagGGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGAGTAAT
EST: gi|88543303|gb|CI473300.1|CI473300
EST:     TTAAGATTGAGATACCCAAGATACCTGCATATTTCACG                         GGCACTGGAGATTTAACAACTGCCCTTTTACTAGGATGGAGTAAT
genomic: TTAAGATTGAGATACCCAAGATACCTGCATATTTCACGgtatgcactc ... tgctttgcagGGCACTGGAGATTTAACAACTGCCCTTCTACTAGGATGGAGTAAT