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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGATGGTAATAGACAGCCTGGACAGATTAATTACGTCCTGGGAGGAGCAGAAACAATCTGTAATTGTTGAGGGAGTTCATCTAAGCCTCAATTTTGTGgtgcgttgcgtactagttagatatttgcatcaattacttatactttgttgcatactagagaactgatgtagccttttctattttcattttccaacag

Basic information

species Oryza sativa
transcript LOC_Os02g57400.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57400.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G123544_T01 (Zea mays), 5'ss of exon 4
CGAGATGGTAATAGACAGCCTGGACAGATTAATTACGTCCTGGGAGGAGCAGAAACAATCTGTAATTGTTGAGGGAGTTCATCTAAGCCTCAATTTTGTGgtgcgttgcgtactagttagatatttgca-----tcaatta-cttatactttgttgcatactagagaactgatgtagcctttt-----ctattttcatttt---ccaacag
||||||||| || ||||||||||||||||||||||| |||||||| ||||||||| |||| || || || || ||||| ||||||||||| || || ||||| |||  |   | ||  |   |  ||       ||  ||| | ||| |||| ||   |  |      | ||||   |    |     ||| ||  | | |   || ||||
CGAGATGGTGATCGACAGCCTGGACAGATTAATTACCTCCTGGGAAGAGCAGAAAGAATCCGTGATCGTCGAAGGAGTGCATCTAAGCCTTAACTTCGTGgtacgtatcagtcaagaaacgaaaatgagattgttcgtttagcctatgcttttttttttttttttttgcagatggcactgactatacgctacttctactgttgaccgacag

upper sequence: LOC_Os02g57400.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G342327_T01 (Zea mays), 5'ss of exon 4
CGAGATGGTAATAGACAGCCTGGACAGATTAATTACGTCCTGGGAGGAGCAGAAACAATCTGTAATTGTTGAGGGAGTTCATCTAAGCCTCAATTTTGTGgtgcgtt--------------gcgtactagttaga--tatttgcatcaattacttatactttgttgcatactagagaactgatgtagcc--ttttctattttcattttccaacag-----------------------
 |||||||| || |||||||||||||| |||||||| |||||||| ||||||||| ||||||| |||||||| ||||| ||||||||||| || |||||||| |||               | | |   || ||   |||||  |  ||||  |||   | |||||  | |         | | || |   |||    |   || |    ||                          
TGAGATGGTGATCGACAGCCTGGACAGGTTAATTACATCCTGGGAAGAGCAGAAAGAATCTGTGATTGTTGAAGGAGTGCATCTAAGCCTTAACTTTGTGgtacgtattagtcaagaaacagtgcaggggtgaggggtatttcaaaaaattgtttagtttatgttgttttccgttatttagttatatctcatttctcgtagccactgattaaagtcttcttctgctgttaatcaacag

upper sequence: LOC_Os02g57400.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv08s0040g01610.t01 (Vitis vinifera), 5'ss of exon 4
CGAGATGGTAATAGACAGCCTGGACAGATTAATTACGTCCTGGGAGGAGCAGAAACAATCTGTAATTGTTGAGGGAGTTCATCTAAGCCTCAATTTTGTGgtgcgttgcgtactagttagatatttgcatcaattacttatactttgttgcatactagagaactga---tgtagccttt-----tctattttcattttccaacag
 |||||||| || ||||| || ||   | | || ||  | ||||| |||| |||| |||| |||||||||||||| || ||  |||||||||||||| | ||| || |   | || |   || | |  |||  ||   |   |  | |  ||   || |  | | |   ||| | |||      ||||  |   || |   ||  
TGAGATGGTCATTGACAGTCTCGATCAACTGATCACTGCATGGGAAGAGCGGAAAGAATCAGTAATTGTTGAGGGTGTGCACTTAAGCCTCAATTTTATTgtgagt-gtacattattcttat-tctttatcggttttctgc-caatctctcaagttaaatgatttaatttgttgtcttgatggatctaagtaatttctttgac--

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|58691482|gb|CK080169.1|CK080169
EST:     GGGAG-TCATCTAAGCCTCAATTTTGTG                         ATGGGGCTAATGAAGAAACACCCTTCCATAATACCATTTATGGTATACATT
genomic: GGGAGTTCATCTAAGCCTCAATTTTGTGgtgcgttgcg ... tttccaacagATGGGGCTAATGAAGAAACACCCTTCCATAATACCATTTATGGTATACATT
EST: gi|33690965|gb|CF319204.1|CF319204
EST:     AGAAACAATCTGTAATTGTTGAGGGAGTTCATCTAAGCCTCAATTTTGTG                         ATGGGGCTAATGAAGAAACACCCTTCCATAATACCATTTATGGTATACATT
genomic: AGAAACAATCTGTAATTGTTGAGGGAGTTCATCTAAGCCTCAATTTTGTGgtgcgttgcg ... tttccaacagATGGGGCTAATGAAGAAACACCCTTCCATAATACCATTTATGGTATACATT