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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTTCTCAGAGGCAGAAGTCCGGAATTGGTGCTTTCAGATTTTTCAGGCTCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTGgtaggttctcttgtttagtcaacatcttcacctatatttctgtggcaatcaaattatgaaactacggatgagtatcagatgtaggtatgcagaatcaggg...

Basic information

species Oryza sativa
transcript LOC_Os02g47220.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47220.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G178822_T01 (Zea mays), 5'ss of exon 9
CCTTTCTCAGAGGCAGAAGTCCGGAATTGGTGCTTTCAGATTTTTCAGGCTCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTGgtaggttctct---tgtttagtcaacatcttcacctatatttctgtggcaatcaaattatgaaactacggatgagtatcagatgtaggtatgcagaatcaggg
|||||||| ||| | |||||||| || ||||| |||||||| |||||||||||||||||||||||||||||||| ||||||||||||||||| |||||||||||| ||||    |  | |   | || ||  |  | | ||||  | |||   |||  |||    |     | |  |   ||| ||   ||  | ||      
CCTTTCTCCGAGTCTGAAGTCCGCAACTGGTGTTTTCAGATATTTCAGGCTCTTGCATACATGCACCAGAGGGGCTACTTTCATCGTGACCTCAAACCTGgtaggatctcagtgttctcaacaatcagctagatgtttgtttccatagcatataaaaaatggttattttagtcatcaaatgat-taccaatttacaactct--

upper sequence: LOC_Os02g47220.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 8
CCTTTCTCAGAGGCAGAAGTCCGGAATTGGTGCTTTCAGATTTTTCAGGCTCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTGgtaggttctcttgtttagtcaaca-tcttcacctatatttctgtggcaatcaaattatgaaactacggatgagtatcagatg-taggtatgcagaatcaggg--
|||||||| ||| | |||||||| || |||||||||||||| |||||||||||||| |||||||| |||||||| ||||||||||||||||| |||||||||||||| |   || | ||||||| ||       | ||  |  | |||   |||  ||    ||     |    |||| |||   |  |  |||  |       
CCTTTCTCGGAGTCTGAAGTCCGCAACTGGTGCTTTCAGATATTTCAGGCTCTTGCTTACATGCATCAGAGGGGCTACTTTCATCGTGACCTCAAACCTGgtaggtt-tgcagtgttgtcaacaatcagttgagacatccccatagcatataaaaaatt---cttactttagccatcaaatgactgaaacacagctttgaccgc

upper sequence: LOC_Os02g47220.3 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA09G34610.1 (Glycine max), 5'ss of exon 5
CCTTTCTCAGAGGCAGAAGTCCGGAATTGGTGCTTTCAGATTTTTCAGGCTCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTGgtaggt-tctcttgtttagtcaacatcttcacctatatttctgtggcaatcaaattatgaaactacggatgagtatcagat-gtaggt-atgcagaatcaggg
|  || || || || |||||  | |||||||| |||||  ||||||| | |||||| |||||||||||| | || ||||| |||||||||||||| |||||||  | | | || ||   || |||   |    || |||   ||        || |  ||   | |   | | ||| | || | | |  ||  | | |     
CTATTTTCTGAAGCTGAAGTTAGAAATTGGTGTTTTCAAGTTTTTCAAGGTCTTGCTTACATGCACCAGCGTGGATACTTCCATCGTGACCTGAAGCCTGgtacttattttttattgcatccacaatctgg--tagattatggttttggatgaactgggagtgttcatttta-tattacatagcatgccatatatattttctt

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|58660884|gb|CK049564.1|CK049564
EST:     TCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTG                         AGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTG
genomic: TCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTGgtaggttctc ... actaatgcagAGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTG
EST: gi|24208295|gb|AU225322.1|AU225322
EST:     TCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTG                         AGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTG
genomic: TCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTGgtaggttctc ... actaatgcagAGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTG
EST: gi|88256807|gb|CI354588.1|CI354588
EST:     TACTTTCATCGTGACCTGAAACCTG                         AGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTG
genomic: TACTTTCATCGTGACCTGAAACCTGgtaggttctc ... actaatgcagAGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTG
EST: gi|33797218|gb|CF324473.1|CF324473
EST:     TCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTG                         AGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTG
genomic: TCTTGCATACATGCACCAGAGGGGTTACTTTCATCGTGACCTGAAACCTGgtaggttctc ... actaatgcagAGAATCTGTTGGTTAGCAAAGATGTCATAAAGCTGGCGGACTTTGGTCTTG