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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAGAACCTGCTGATAGATCGGCGTACCAACTCATTGAAGCTCGCGGACTTTGGGTTGGCCAGGGCATTTGGCATTCCTGTCCGGACATTTACTCACGAGgtacattttacagcccgacacgtttttcgtttggtacactgtgatttatagtccttgcacatcacactacagaagaggggaactgtctaatggtgaaaac...

Basic information

species Oryza sativa
transcript LOC_Os02g03060.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g03060.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G174596_T02 (Zea mays), 5'ss of exon 4
CCAGAACCTGCTGATAGATCGGCGTACCAACTCATTGAAGCTCGCGGACTTTGGGTTGGCCAGGGCATTTGGCATTCCTGTCCGGACATTTACTCACGAGgtacattttacagcccga---cacgtttttcgtttggtacactgtgatttatagtccttgcaca---tcacactacagaagaggggaactgtctaatggtgaaaac
 |||||||||||||| || || || | ||||   ||||||||||||||||||||  |||| ||||| || ||||| ||||||||||| || ||||| ||||||| |||  || || ||   |||| | |  || |||||   ||     |  ||    |||      |||  |  | | ||  ||||| | |   |||        
GCAGAACCTGCTGATTGACCGCCGCAACAACCTCTTGAAGCTCGCGGACTTTGGACTGGCGAGGGCGTTCGGCATCCCTGTCCGGACGTTCACTCATGAGgtacgtttcgcaccctgatgacacgctctcggtctggtagtatgctggcttgaggtgctgcgtgagttcaatccgcggtagctgggaaat-tgccatgcca-----

upper sequence: LOC_Os02g03060.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA09G03470.1 (Glycine max), 5'ss of exon 4
CCAGAACCTGCTGATAGATCGGCGTACCAACTCATTGAAGCTCGCGGACTTTGGGTTGGCCAGGGCATTTGGCATTCCTGTCCGGACATTTACTCACGAGgtacattttacagcccgacacgtttttcgtttggtac-actgtgatttatagtcct----tgcacatcacactacagaagaggggaactgtctaatggtgaaaac
 |||||  || |||||||||| ||||| || ||| ||||||| || || ||||| ||||| ||||||||||||||||||||| |||| ||||| || |||||   | |  |  ||  | | |   |||  | |  |    ||    | |||    |    || |        | || ||||     | | |   ||  ||     
ACAGAATTTGTTGATAGATCGCCGTACTAATTCACTGAAGCTTGCAGATTTTGGATTGGCTAGGGCATTTGGCATTCCTGTCAGGACCTTTACACATGAGgtttgtgt-gctaccttatatgagcttctctagtcattgatgcagataataaaattgaaatggattggctttttcacaagaaaatga-tatgccattatgct---

upper sequence: LOC_Os02g03060.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA15G14390.1 (Glycine max), 5'ss of exon 4
CCAGAACCTGCTGATAGATCGGCGTACCAACTCATTGAAGCTCGCGGACTTTGGGTTGGCCAGGGCATTTGGCATTCCTGTCCGGACATTTACTCACGAGgtacattttacagcccg-acacgtttttcgtttggtacac-tgtgat----ttatagtccttgcacatcacactacagaagaggggaactgtctaatggtgaaaac
 |||||  || |||||||||| ||||| || ||| | ||||| || || ||||| ||||| ||||||||||||||||||||| |||||||||| || |||||   | |   | |    |   | || | ||     |  | | | ||    ||  | |   ||  | |  |   |    |    |  |    || ||| ||     
ACAGAATTTGTTGATAGATCGCCGTACTAATTCACTAAAGCTTGCAGATTTTGGATTGGCTAGGGCATTTGGCATTCCTGTCAGGACATTTACACATGAGgtttgtgtcctaccttatatgtgcttctagtcatccatgcatataataaaattgaaatgaatgagcttttc--catgagaatatgacatgcccttatgctgt----

upper sequence: LOC_Os02g03060.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA05G25320.1 (Glycine max), 5'ss of exon 3
CCAGAACCTGCTGATAGATCGGCGTACCAACTCATTGAAGCTCGCGGACTTTGGGTTGGCCAGGGCATTTGGCATTCCTGTCCGGACATTTACTCACGAGgtacattttacagcccg-acacgtttttcgtttggtacactgtga---tttatagtccttgcacat-cacactacagaagaggggaactgtctaatggtgaaaac
 |||||  || ||||||||||  | || ||  || |||| || || || ||||| ||||||||||| ||||| ||||||||  |||||||||| || |||||   | |   | |  | ||  | || |    | | | |   | |   |||  | |   ||  | |    |||| ||||||    |    |  |    |      
ACAGAATTTGTTGATAGATCGCAGCACTAATGCACTGAAACTTGCAGATTTTGGATTGGCCAGGGCTTTTGGAATTCCTGTTAGGACATTTACACATGAGgtttgtgtgctaccttgtactgggttcttaccttggatataattaaactttgaaattaatgggcttatgtactagagaagaaat-actcatgcagcatttt----

upper sequence: LOC_Os02g03060.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT3G48750.1 (Arabidopsis thaliana), 5'ss of exon 5
CCAGAACCTGCTGATAGATCGGCGTACCAACTCATTGAAGCTCGCGGACTTTGGGTTGGCCAGGGCATTTGGCATTCCTGTCCGGACATTTACTCACGAGgtacattttacagcccgacacgtttttcgtttggtacactgtgatttatagtccttgcacatcacactacagaagaggggaact--gtctaatggtgaaaac--
 |||||  || |||| ||||| || || |||||| ||||||| || || |||||  ||||||| ||||| || || |||||| ||||||||||||| |||||||     | |||   |  | || ||| | || | |   || ||  |   |  | ||      || | |  | ||| | ||       |||   | | | |  
ACAGAATTTGTTGATTGATCGCCGCACAAACTCACTGAAGCTTGCTGATTTTGGACTGGCCAGAGCATTCGGTATCCCTGTCAGGACATTTACTCATGAGgtac--caaagagctttattccttgttcatatgttcc--cgttatgaaatcttttggctggctgcattccttatgagtgtaatgtaaattaagtattataccac

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|33678285|gb|CF306524.1|CF306524
EST:     TTGGGTTGGCCAGGGCATTTGGCATTCCTGTCCGGACATTTACTCACGAG                         GTGGTGACATTGTGGTATAGAGCACCTGAAATTCTTCTTGGTGCAAGGCAT
genomic: TTGGGTTGGCCAGGGCATTTGGCATTCCTGTCCGGACATTTACTCACGAGgtacatttta ... ggtttgttagGTGGTGACATTGTGGTATAGAGCACCTGAAATTCTTCTTGGTGCAAGGCAT