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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGGGACGTGATCTTATTGGCATTGCTGAAACAGGATCAGGGAAAACACTTGCTTACCTTTTACCTGCCATTGTTCATGTTAATGCTCAGCCGATTCTAGgtgcgaaatgttgcttatgtttcttaaccgattttcttggatacattctggacttcttttgtggtaatctactaacatttttccgtgtgttattaaag

Basic information

species Oryza sativa
transcript LOC_Os01g10050.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G143246_T01 (Zea mays), 5'ss of exon 3
AGGGGACGTGATCTTATTGGCATTGCTGAAACAGGATCAGGGAAAACACTTGCTTACCTTTTACCTGCCATTGTTCATGTTAATGCTCAGCCGATTCTAGgtgcgaaatgttgcttatgtttcttaaccgattttcttggatacattctggacttcttttgtggtaatctactaacattt----ttccgtgtgttattaaag
|| || || || |||||||||||||| || ||||||||||||||||| |||||||||||||||||||||||||||||||| ||||| ||||| |||||  ||| ||| |  |        | |||  ||    ||||     |  || |||    ||   |    ||  |   |||| ||    ||  || |||| || |||
AGAGGCCGCGACCTTATTGGCATTGCAGAGACAGGATCAGGGAAAACTCTTGCTTACCTTTTACCTGCCATTGTTCATGTGAATGCGCAGCCTATTCTTTgtgagaacttgtttccccaatgcttttcc----ttctcaaccatcttttgggaa-ctccagctaaaaattctgaacacttacaattttgt-tgttgttgaag

upper sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA08G20670.1 (Glycine max), 5'ss of exon 3
AGGGGACGTGATCTTATTGGCATTGCTGAAACAGGATCAGGGAAAACACTTGCTTACCTTTTACCTGCCATTGTTCATGTTAATGCTCAGCCGATTCTAGgtgcgaaatgttgcttatgtttcttaaccgatt---ttcttggatacat-tctggacttcttttgtggtaat-ctactaacatttt----tccgtgtgttattaaag-------
| ||| |||||||| || || ||||| ||||||||||||||||| |||||||||||| | || ||||||||||| ||||||||||||||||| || ||| ||| | |    |    |     || |   ||||   ||      | ||| |  ||    ||||| ||   || ||||     ||||    ||| |  ||| | ||         
AAGGGGCGTGATCTGATAGGAATTGCAGAAACAGGATCAGGGAAGACACTTGCTTACTTGTTGCCTGCCATTGTGCATGTTAATGCTCAGCCAATACTAAgtgagtata--taaggaaacaactgagatgattagatttcacattgcatgtaagggtgccttttctgactatgctacctttgttttgccgtccattcgttttcaatattttcag

upper sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA07G01260.1 (Glycine max), 5'ss of exon 3
AGGGGACGTGATCTTATTGGCATTGCTGAAACAGGATCAGGGAAAACACTTGCTTACCTTTTACCTGCCATTGTTCATGTTAATGCTCAGCCGATTCTAGgtgcgaaatgttgcttatgtttct--taaccgattttcttggatacattctggacttcttttgtggtaat-ctactaacatttttccgtgtgtt-attaaag----------
| ||| |||||||| || || ||||| ||||||||||||||||| |||||||||||| | || ||  ||||||| ||||||||||||||||| |||||| ||  | ||    |   |    |     ||     |||| |        |  ||    ||||| ||   ||  |||     | || ||||   ||  || | |          
AAGGGGCGTGATCTGATAGGAATTGCAGAAACAGGATCAGGGAAGACACTTGCTTACTTGTTGCCATCCATTGTGCATGTTAATGCTCAGCCTATTCTAAgtaaggaaataaggaaacaactgagacaattagatttcatattggatgtaagggtgccttttctgactatgttacctttgtcttgccgtccattcgtttacgatattttcag

upper sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA07G11880.1 (Glycine max), 5'ss of exon 2
--------------AGGGGACGTGATCTTATTGGCATTGCTGAAACAGGATCAGGGAAAACACTTGCTTACCTTTTACCTG--------CCATTGTTCATGTTAATGCTCAGCCGATTCTAGgtgcgaaatgttgcttatgtttcttaaccgattttcttggatacattctggacttcttttgtggtaatctactaacatttttccgtgtgttattaaag
              | ||| |||||||| || || ||||| ||||||||||||||||| |||||||||||| | || ||          ||||||| ||||||||||||||||| |||||| ||  | ||   |    |     || |  | |||                                                                 
GGCCCATGGCTTTGAAGGGGCGTGATCTAATAGGAATTGCAGAAACAGGATCAGGGAAGACACTTGCTTACTTGTTGCCAATTTGTCATCCATTGTGCATgttaatgctcagcctattctaagtaaggaaa--taaggaaacaactgagacaattag---------------------------------------------------------------

upper sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT1G55150.1 (Arabidopsis thaliana), 5'ss of exon 3
AGGGGACGTGATCTTATTGGCATTGCTGAAACAGGATCAGGGAAAACACTTGCTTACCTTTTACCTGCCATTGTTCATGTTAATGCTCAGCCGATTCTAGgtgcgaaatgttgcttatgtttcttaaccgattttcttggatacattctggacttcttttgtggtaatctactaacatttttccgtgtgttattaaag-------
| ||||||||||||||| |||||||||||||| || || || || || ||| ||||| |  ||||||| ||||| ||||||||||| || || ||  |||||   |    |   || || | ||  |    |||| ||       ||  |  ||| |||  ||| | |     ||   | | | |  ||  || |||        
AAGGGACGTGATCTTATCGGCATTGCTGAAACTGGTTCTGGAAAGACTCTTTCTTACTTACTACCTGCTATTGTCCATGTTAATGCCCAACCAATGTTAGgta--atgcttgatttctgctcctggagttctttttttt------tttcgttcttgtttgatggaagttgtaaaaggctgtactgattgaaataaaatttcccag

upper sequence: LOC_Os01g10050.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv09s0002g02100.t01 (Vitis vinifera), 5'ss of exon 3
AGGGGACGTGATCTTATTGGCATTGCTGAAACAGGATCAGGGAAAACACTTGCTTACCTTTTACCTGCCATTGTTCATGTTAATGCTCAGCCGATTCTAGgtgcgaaatgttgcttatgtttcttaac--cgattttcttggatacattctggacttcttttgtggtaatctactaacatttttccgtgtg----ttattaaag----------------------------------
| ||| |||||| | ||||| |||||||||||||||||||| || |||||||| || || || ||||| ||  | ||||| ||||||||||| ||| |||||   || |||   |    ||  || |   || |  | |  |||   |      ||   | | |    || ||   | || | | |         || ||  ||                                  
AAGGGCCGTGATGTCATTGGTATTGCTGAAACAGGATCAGGAAAGACACTTGCATATCTATTGCCTGCAATCATCCATGTAAATGCTCAGCCAATTTTAGgtat-aagtgtctttctaattcgttgatgtcgctaatttctgatttctatctatctatctatctatctatatatatatatatatgcacacacatttttttctagttacaagttttggtctttctctgtattttctcag

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|218490551|gb|FG953048.1|FG953048
EST:     CTTTTACCTGCCATTGTTCATGTTAATGCTCAGCCGATTCTAG                         CACCTGGCGATGGTCCAATTGTTCTGGTGTTAGCCCCTACACGTGAACTTG
genomic: CTTTTACCTGCCATTGTTCATGTTAATGCTCAGCCGATTCTAGgtgcgaaatg ... gttattaaagCACCTGGCGATGGTCCAATTGTTCTGGTGTTAGCCCCTACACGTGAACTTG