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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacatttttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag

Basic information

species Oryza sativa
transcript LOC_Os03g01850.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G008327_T01 (Zea mays), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtac------tata----gatttgtgttcaacatt-----ttgttttcttcataaagtacatttttt------tttc---gtcataaagttc---atttttcattt----------accttttc---tatacactag-cacattaactcacaatggatgtctatgggaagtatttttcag
||| || ||||||||||||||||| |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||      |||      | ||| |      | |     ||||  | ||    ||  | || || |      |  |   || ||  | | |   | |||| |             |||||||    ||||  |||| |||||||| ||||| |  || ||||||| |||||||||||||
TCAAAACTTATTGATAGATCGGCGCACTAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGTACATTTACTCATGAGgtacatttgttatgctctaacttgagaaagggagtctgaattgtcctgttagggaaaaaaatattgtgagggatgccaaagttatggattcccacaatttttacccgaataacgtaaccttttgctgtatattctagtcacattaattcacagtacatatctatgg-aagtatttttcag

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G143213_T02 (Zea mays), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgta------ctata--gatttgtgttcaacat-----------tttg--ttttcttcataaagtacatttttttttcg-----------tcataaagttcatt--tttcat------------ttaccttttcta---tacactag-cacattaactcacaatggatgtctatgggaagtatttttcag
|||||| || |||||||||||||||| |||| |||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||      ||||   | ||  || | ||| |           ||||  || || |  ||  | | |  | || |  |           | ||  |   ||    ||| ||            | ||||||| |    ||  |||| || || ||||||  ||  || ||||||| |||||||||||||
TCAGAACTTGTTGATAGATCGGCGTAATAATGCACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGTACATTTACTCATGAGgtaaatttgctatgctgcttattgcttaacttgagaaagggagtttgaattatcctattagggaaaaaatattgtgaggggtgccaaaattatggatcccaccgattttatacccatataacataaccttttgttgtctattctagtcatatcaactca--atacatatctatgg-aagtatttttcag

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA09G03470.1 (Glycine max), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacatttttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| ||||||||||| ||||||||| |||||||||||||||| ||||| || || ||||||||||| ||||||||| | || ||||| ||||||||         |||||| | || || | |   ||||   |   |   ||  |     | ||||| || |  |   |||  | |||||   |||  |  |   ||   ||  |||                         
ACAGAATTTGTTGATAGATCGCCGTACTAATTCACTGAAGCTTGCAGATTTTGGATTGGCTAGGGCATTTGGCATTCCTGTCAGGACCTTTACACATGAGgt---------ttgtgtgctaccttatatgagcttctctagtca---ttgatgcagataataaaattgaaatgg-attggctttttc---acaagaaaatgatatgccattatgct-----------------------

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA15G14390.1 (Glycine max), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacatttttttttcgtcataaagttcatttttcatttaccttttctat-acactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| ||||||||||| ||||||||| |||| ||||||||||| ||||| || || ||||||||||| ||||||||| | |||||||| ||||||||         |||||| | || || | | | ||||      | |||   |      | ||||| || |  |   | | | |||||| || | | ||  ||||   || |   ||                         
ACAGAATTTGTTGATAGATCGCCGTACTAATTCACTAAAGCTTGCAGATTTTGGATTGGCTAGGGCATTTGGCATTCCTGTCAGGACATTTACACATGAGgt---------ttgtgtcctaccttatatgtgcttctagtcatccatgcat-----ataataaaattgaaatg--aatgagcttttccatgagaatatgacatgcccttatgctgt------------------------

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA05G25320.1 (Glycine max), 5'ss of exon 3
TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacatttttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| |||||||||||  | |||||| ||||||| |||||||| ||||| || |||||||| ||||||||||||||  | |||||||| ||||||||         |||||| | || || |  |   |||            ||   || |  ||||  |  | |||  | |||       |||  |||||   |  ||  | ||       | |                  
ACAGAATTTGTTGATAGATCGCAGCACTAATGCACTGAAACTTGCAGATTTTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgt---------ttgtgtgctaccttgtactgggttc------------ttaccttggatataat-taaactttgaaattaatgggcttatgtactagagaagaaatactcatgcagcatttt-----------------

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA08G08330.1 (Glycine max), 5'ss of exon 4
TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacatttttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| |||||||||||  | | |||| |||| || |||||||| ||||| || || ||||| ||||||||||||||  | |||||||| ||||||||         |||||| | ||  | |  |   |||            |    || |  ||||  |  |||||  | |||       |||  |||||   || ||  | ||       | |                  
ACAGAATTTGTTGATAGATCGCAGCAATAATGCACTAAAACTTGCAGATTTTGGATTGGCTAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgt---------ttgtgtgctaccctgtactgggttc------------tgaccttggatataat-taaattttgaaattaatgcgcatatgtactagagtataaatactcatgcagcatttt-----------------

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 4
lower sequence: AT3G48750.1 (Arabidopsis thaliana), 5'ss of exon 5
TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacatttttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 |||||||| ||||| ||||| || || ||  ||||||||||||| || |||||  | ||||| ||||| || || |||||| | ||||||||||||||||||| | |||  | | |||    ||    | |   | | | | | || ||||    | |      | ||||  | ||     | |  | || | ||    ||||   |||                             
ACAGAATTTGTTGATTGATCGCCGCACAAACTCACTGAAGCTTGCTGATTTTGGACTGGCCAGAGCATTCGGTATCCCTGTCAGGACATTTACTCATGAGgtaccaaagagctttattccttgttcatatgttcccgttatg-aaatcttttggctggc------tgcattccttat--gagtgtaatgtaaattaa-gtattataccac-----------------------------

upper sequence: LOC_Os03g01850.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv15s0045g00310.t01 (Vitis vinifera), 5'ss of exon 5
TCAGAATTTATTGATAGATCGGCGTACTAATACACTGAAGCTTGCAGACTTTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtactatagatttgtgttcaacattttgttttcttcataaagtacatttttttttcgtcataaagttcatttttcatttaccttttctatacactagcacattaactcacaatggatgtctatgggaagtatttttcag
 ||||| ||| | |||||||| ||||| ||| || | ||||| ||||||||||| || || || |||||||| ||||||||  | |||||||| |||||||||  |   || ||   ||    |    | |||  ||| |       |||||  || | |    ||   |   || || |   | | |    | || || || || |                                
CCAGAACTTACTCATAGATCGTCGTACCAATGCATTAAAGCTGGCAGACTTTGGATTGGCAAGAGCATTTGGTATTCCTGTTAGGACATTTACACATGAGgtatca---atgtgcaatccgtgtgacctcttccacatga-------tttttcctctttacttggtatttgcatctttaataatatttg---attatcatatcaattttttgc--------------------------

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|29662032|gb|CB658307.1|CB658307
EST:     TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAG                         GTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG
genomic: TTGGTTTAGCCAGGGCATTTGGAATTCCTGTCCGCACATTTACTCATGAGgtactataga ... tatttttcagGTTGTAACCTTGTGGTATAGAGCTCCAGAGATCCTTCTTGGATCAAGGCAG