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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgttttacacattatttacaacccatttggatgttttgtttcttcctggtttattgctctacagcctacaacagtttaaatattttcagcttgaaat...

Basic information

species Oryza sativa
transcript LOC_Os01g50030.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G060886_T01 (Zea mays), 5'ss of exon 8
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgttttacacattatttacaacccatttggatgttttgtttcttcctggtttattgctctacagcctacaacagtttaaatattttcagcttgaaat
 |||||||| ||||||||||| ||||||||||| |  |||||||||||||||||||| ||||| ||||| ||||| ||||||||||||||||||||||| ||| |||| | | ||    |    |  || |     ||||       ||    |||  ||         |   | |  |  |  |  |    ||||| | 
TTGCTCAGTGGAGTTTGAAGTTGCTGATTGCACTACGAAGACATACCCAGACAACACATTTGATGTCATATACAGCCGTGATACTATCCTTCACATACATgtatgtttcaaatatatcctgtttcagatgtacgcttttttcagaagccacccttaacgcatcgtgaagttttaaaactacacgaaatgatacttgagag

upper sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G122296_T01 (Zea mays), 5'ss of exon 8
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgttttacacattatttacaacccatttggatgttttgtttcttcctggt----ttattgctctacagcctacaacagtttaaa-tattttcagcttgaaat--------------------------------------------------------------------------------
||||| ||||||||||||||| ||||||||||||| |||||||||||||||| ||| |||||| ||||||||||||||||| ||||||||||| ||||||||| | |||| ||||     | ||  ||| | |   |||| || |    || |     ||   ||  |     || ||   |  ||| ||| ||||| |  | ||                                                                                
GTGCTTAGTTGAGTTTGAAGTTGCTGATTGCACCACAAAGACATACCCAGACCACATGTTTGATGTCATCTACAGTCGTGACACTATCCTTCATATACAAgtatgctttatacat-----ataatgcatgtagtccttttcttccaagatgatagagctacatcttgatcatatagaatcatggaaactatcttcagttatagatgtacttattagaaacttgtttatgtcatacctttagttgactgtttaactaacatgccttttctggttttgactctgcag

upper sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G18000.1 (Arabidopsis thaliana), 5'ss of exon 8
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgttttacacattatttacaacccatttggatgttttgtttcttcctggtttattgctctacagcctacaacagtttaaatattttcagcttgaaat
 ||||| ||||||||||| || ||||||||||||| |||    |||||||| ||  ||||||| ||||| ||||| ||||| ||||| || ||||| |||||||     |   ||    ||   | |  ||||| ||||    |  |    | ||| |  |   |    | |  |||                       
CTGCTCGGTTGAGTTTGAGGTTGCTGATTGCACCACAAAACACTACCCAGATAATTCGTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtactcaacatg-atctcatagttctctcttggaagtttataattgtgaatgcttactcattctctcttttcttcag-----------------------

upper sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
lower sequence: AT1G48600.2 (Arabidopsis thaliana), 5'ss of exon 8
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgttttacac-attatttacaacccatttggatgttttgtttcttcctggtttattgctct--acagcctacaacagtttaaatattttcagcttgaaat
 |||||||| |||||||||||||||||||||||||  || ||||| || || ||  | ||||| ||||| ||||| ||||| ||||| || ||||| ||||||      |  | | |   || |    || |  || | || ||||   || |   || | | |    |  |  |  | |      |  | || | |      
ATGCTCAGTCGAGTTTGAAGTCGCTGATTGCACCACCAAAACATATCCCGATAATTCCTTTGATGTCATTTACAGCCGTGACACTATTCTGCACATCCAAgtataagcaaagctactcaatatattatatatatatttgttctttcactcttgaagatggtttttggtaatcatcctctgcaccctttatctctgttcag---

upper sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv17s0000g02430.t01 (Vitis vinifera), 5'ss of exon 8
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgtt--ttacacattatttacaacccatttggatgttt-tgtttcttcctggtttattgctctacagcctacaacagtttaaatattttcagcttgaaat-
|||||||||||| || || || ||||| |||||||| ||  |||| || |||||||| ||||| || |||||||| ||||| || || |||||||| ||||||   |   |     || | |      | |||| ||| || ||  |||      ||||||  |||   ||||   | | | ||  |   ||  | | ||||  
GTGCTCAGTTGAATTCGAGGTAGCTGACTGCACCAAGAAATCATATCCTGACAACACATTTGATGTGATCTACAGCCGTGACACCATTCTTCACATTCAAgtaatatacctttcttttttctgtgggacttttgaatggttatgcatctgttaattttattattct---gcct-ttatattctagttccatttggttcgaaaag

upper sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv01s0011g05200.t01 (Vitis vinifera), 5'ss of exon 8
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgt-tttacacattatttacaacccatttggatgttttgtt-------tcttcctggtttattgc-tctacagcctacaacagtttaaatattttcagcttgaaat-----------------------------------------------------------------
 |||   || || || || || |||||||||||||| || || || || || || || ||||| || |||||||| |||||||| || ||||||||||| |||    ||| |||||  ||| || |   ||      |  || |       |||    | | | |||  ||| |  ||    |||    | |||     |  ||   ||                                                                 
ATGCCTGGTCGAATTCGAGGTTGCTGATTGCACCAAGAAAACGTATCCTGATAATACATTTGATGTGATCTACAGCCGTGATACCATTCTTCACATACAGgtagtcattttcacatcctttgcagcggtttcatgaatcatgataaacaactctgaaggatcttttgaatctccgaccatgcacatccaacatagccgaaattttttattattaattatggtttttccttttcttcatataccgccatctgatggtagctgtggaattttttag

upper sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv01s0011g05220.t01 (Vitis vinifera), 5'ss of exon 7
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgttttacacattatttacaacccatttggatgttttgtttcttcctggtttattgctctacagcctacaacagtttaaatattttcagcttgaaat-
  |||  ||||| ||||| || || ||||||||||| || ||||| || || |  || ||||| || |||||||||||||| ||||| |||||||||||||||  |  | |  |||  ||    |  ||||     ||  |  | |||   |   |    |  |  | ||     | |||    |  ||| | |       
TCGCTTGGTTGAATTTGAGGTTGCAGATTGCACCAAGAAAACATATCCTGATAGTACATTTGATGTGATCTACAGTCGTGACACTATTCTTCACATACAAgta-atcattcctatttctttatccgaatttcacgattaaggctgttctgtgaacaactataaagggtcttgttaattttgtgcacattctgttcttttct

upper sequence: LOC_Os01g50030.1 (Oryza sativa), 5'ss of exon 8
lower sequence: PP1S60_199V6.2 (Physcomitrella patens), 5'ss of exon 6
GTGCTCAGTTGAGTTTGAAGTCGCTGATTGCACCAAAAAGACATACCCAGACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtac-gttttacacattattta---caacccatttg--gatgttttgtttcttcc--tggtttattgctctacagccta-caacagtttaaatattttcagcttgaaat---------------
 ||  |||| ||||||||||| |  ||||||||||| |  |  |||||  ||    | ||||| |||||||||||||||||||| || || ||||| ||||||  ||| | | ||||||||       |     ||  |||||   || | | ||   |||||   || ||  | | |    |  ||  ||      | |   | |  |               
ATGTGCAGTCGAGTTTGAAGTTGGGGATTGCACCAAGATTAATTACCCTCACGCATCTTTTGATGTCATCTACAGTCGTGATACCATTCTACACATTCAAgtaaagttctgcccattatttggttttgcttggctgcagatgtccagtgtttgccgtcggttttgagccctttaccgtggtcattgtcaaatccccataaaactaacgtgatcgtggattacag

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|8335300|gb|BE040284.1|BE040284
EST:     ACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAA                         GATAAACCCTCACTATTTAAAAGTTTCTTCAAGTGGCTCAAACCTGGGGGT
genomic: ACAACACGTTTGACGTCATCTACAGTCGTGATACTATCCTTCACATACAAgtacgtttta ... ctctttgcagGATAAACCCTCACTATTTAAAAGTTTCTTCAAGTGGCTCAAACCTGGGGGT