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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgttattgcctagaaacatttctgtagtactgaactgctacttttatttatgtaatttacatgccttaatgaatttacaaactttgcaaatgtatacatac...

Basic information

species Oryza sativa
transcript LOC_Os03g42750.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 4
GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgttattgcctagaaacatttctgta--gtactgaact--gctac--tttta--tttatgtaatttacatgccttaatgaatttacaaactttgcaaatgtatacatac-----
|| |||||||||||||| ||||||||||||||||| ||||||||||| ||||| ||||||||||||||||| ||||| |||||  || ||||   ||| |  |||  ||||   |  ||  |||||  || || | || ||       |||| |     | |     |||| ||       
GGATTTGATAACCTTAGGAGTCAGAGTGTTGCCCCACCACAATGGACGATGCGTAACATTGATGACAGgttgttgcccagaaagtttgctgtgtggtattagactctgctagagtgctaattttatccaactt-cttgtctcttgtgctttaaatctcattctttgctatatattttgcag

upper sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA09G18840.1 (Glycine max), 5'ss of exon 4
GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgt--tattgcctagaaacatttctgtagtactgaactgctacttttatttatgtaatttacatgccttaatgaa--tttacaaactttgcaaatg--tatacatac--
|| ||||||||||||||||| |||||||| || ||||| |||||||| |||||||| |||||||| ||||  |||||   ||| | || |   |  |  | |     |   ||  ||  ||   | ||  ||     |||||  ||| |  |   |||  ||   | | | |    
GGATTTGATAACCTTAGAAGCCAGAGTGTGGCTCCTCCTCAATGGACCATGCGCAATATTGATGATAGgtaatattgttgagagaaatattaatc-tgttcacggagttaattagttgttgagttctatgtgaggggatgaaagttttctcatcgtgccgatcacttttcttgtag

upper sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA17G36540.1 (Glycine max), 5'ss of exon 4
GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgt--tattgcctaga--aacatttctgtagtactgaactgctacttttatttatgtaatttacatgccttaatgaa--tttacaaactttgcaaatg--tatacatac--
|| ||||||||||||||||| |||||||| || ||||| |||||||| |||||||| || ||||||||||  |||||   |||  || |||  | |  |  || |  | || ||   |   ||   | ||  ||     |||||  ||| |  |   ||   ||   | | | |    
GGATTTGATAACCTTAGAAGCCAGAGTGTGGCTCCTCCTCAATGGACCATGCGCAATATCGATGACAGgtaatattgttgagagaaatattaatctgttcatggagagttagtta-gtggttgagttctatgtgaggggatgaaagttttctcatcatgtccatcacttttcttgtag

upper sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA04G03710.1 (Glycine max), 5'ss of exon 4
GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgttattgcctagaaacat----ttctgtagtactgaactgctacttttatttatgtaatttacatgccttaa-tgaatttacaaactttgcaa-atgtatacatac--------
|||||||||||||||||||| |||||||| || |||||||| ||||||||||||||  | |||||||||||||  | |  |||  |    |       |   ||  |    | |||||   | ||  |||  |  |  || || | ||     |  ||||   | |||   | |        
GGGTTTGATAACCTTAGAAGCCAGAGTGTGGCTCCTCCACAGTGGACAATGCGCAATGTCGATGACAGgttataccattaaaatgtataatctaagcatgtagagtttaatcctttatggttttatgttatgtaacgaaagtggagtttggctcactgcatcgtctattacttctcttgtag

upper sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 4
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 4
GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgttattgc--ctagaaacatttctgt--agtactg--aactgctacttttatttatgtaatttacatgccttaatgaatttacaaactttgcaaatgtatacatac---------------------
||||||||||| || || ||||| |||||||| |||||||| ||||| |||||||||| ||||||||||| | |||   ||| |||||   | |  | || |   |  ||  |  | ||  |    |      ||   ||  |  |  ||     ||    | |  ||||||||                     
GGGTTTGATAATCTCAGGAGTCAAAGTGTTGCTCCTCCACAGTGGACCATGCGCAACACTGATGACAGgt-actgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatgatatttttgttgacgta--gttttcttcatttaatacatacctttctctgtcatgattgtag

upper sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 4
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 5'ss of exon 4
GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgttattgc--ctagaaacatttctgt--agtactgaactgctacttttatttatgtaatttacatgccttaatgaatttacaaactttgcaaatgtatacatac---------------------
||||||||||| || || ||||| |||||||| |||||||| ||||| |||||||||| ||||||||||| | |||   ||| |||||   | |  | || |  |          |||  |||  |       |  ||  ||       |   ||    | |  ||||||||                     
GGGTTTGATAATCTCAGGAGTCAAAGTGTTGCTCCTCCACAGTGGACCATGCGCAACACTGATGACAGgt-actgcagttagcaacatcaatattaactattacaagatgtgaagtatacatgataagcgatggtatttttgttgacgtagttttcctcatttaatacatacctttctctgtcgtgattgtag

upper sequence: LOC_Os03g42750.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 4
GGGTTTGATAACCTTAGAAGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgttattgcctagaaacatttctgtagtactgaac---tgctacttttatttatgtaatttacatgcctta--atgaatttacaaactttgcaaatgtatacatac
|| |||||||| || ||||| |||||||| || || || || |||||||||||||| |||||||||||||     | |||       | ||||  ||  | |   |   |||||| | | | |  |||  ||    ||  || | |||    |  | |   |   |||     
GGATTTGATAATCTCAGAAGCCAGAGTGTCGCTCCACCTCAGTGGACAATGCGCAATATTGATGACAGgtaccaacatagctgttgatttgtaaaacatatcatgtatcacttttctattttttttttgtattgtatattataagtttttttatatagtggaaa-ataa----

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|88372502|gb|CI610825.1|CI610825
EST:     AGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAG                         AAACCGCCTACTTTTTTCTATCCTGACCATGTGCAAAGAGATACTTAGCTA
genomic: AGTCAGAGTGTTGCCCCTCCACAATGGACAATGCGCAACATTGATGACAGgttattgcct ... ttttttacagAAACCGCCTACTTTTTTCTATCCTGACCATGTGCAAAGAGATACTTAGCTA