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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTTTGCGGCGCATGAATCACCCTAACATCGTGAAGCTCAAGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATGgtacttaaggatgtcatataccgcaaaagtttaattagctctgtatcgcttttgttaagtctcccatgttcttccag

Basic information

species Oryza sativa
transcript LOC_Os02g47220.3
intron # 2
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 2
lower sequence: GRMZM2G178822_T01 (Zea mays), 5'ss of exon 8
TCTTTGCGGCGCATGAATCACCCTAACATCGTGAAGCTCAAGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATGgtacttaaggatgtcatataccgcaaaagtttaattagctctgtatcgcttttgttaagtct---cccatgttcttccag
|||||||||||||||||||| |||||||| ||||||||||| |||||||| ||||||||||| ||||||||||||||||||||||||||||||    |  |||| || ||  |||||  ||  | |    |  ||| | | || || | |||   ||| |||| ||  ||
TCTTTGCGGCGCATGAATCATCCTAACATTGTGAAGCTCAAAGAGGTTATCAGGGAAAATGATATATTATACTTCATAATGGAATACATGgta----aatatgttatgtatagcaaatattctactgcaccattattg-tgttcttgaatctgaacccttgtttttatag

upper sequence: LOC_Os02g47220.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 7
TCTTTGCGGCGCATGAATCACCCTAACATCGTGAAGCTCAAGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATGgtacttaaggatgtcatataccgcaaaagtttaattagctctgtatcg--cttttgttaagtct---cccatgttcttccag
|||||||||||||||||||| |||||||| ||||||||||| ||||||||  | |||||||| ||||||||||||||||||||||||||||||    |  |||| ||  |  |||||  ||  | |   ||  ||  |  || ||||| | |||   ||  |||| ||| ||
TCTTTGCGGCGCATGAATCATCCTAACATTGTGAAGCTCAAAGAGGTTATCCGAGAAAATGATATATTATACTTCATAATGGAATACATGgta----aatatgttatggatagcaaatattctactgcgtcattactgtgctcttgttgaatctgaaccattgtttttctag

upper sequence: LOC_Os02g47220.3 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S173_136V6.1 (Physcomitrella patens), 5'ss of exon 4
TCTTTGCGGCGCATGAATCACCCTAACATCGTGAAGCTCAAGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATGgta---cttaaggatgtcatataccgcaaaa---------gtttaattagctctgtatcgcttttg---ttaagtctcccatgttcttccag------------------------------------
|||||||||    ||||||| ||||||||||||||||| |||||||||||  | ||||| ||   | | |  ||| |  | || || |||||     || ||  | |||     |   |||           ||| ||     | | |  ||| ||   |||| |     |  ||  |  |                                     
TCTTTGCGGAAGCTGAATCATCCTAACATCGTGAAGCTGAAGGAGGTTATCCGTGAAAACGATGAACTGTTTTTCGTTTTTGAGTATATGgtgaggttttagcttttcacggctctagaaatggtacagcaattatttgatggtttgtttcttctgggattaaatgatggacattggtgtaatattcctttcaatattgtttgcatttaatcgtgcag

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:     AGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATG                         GAGTGCAATCTCTACCAACTTATGAAGGATAGAGTCAAGCCTTTCTCAGAG
genomic: AGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATGgtacttaagg ... gttcttccagGAGTGCAATCTCTACCAACTTATGAAGGATAGAGTCAAGCCTTTCTCAGAG
EST: gi|33797218|gb|CF324473.1|CF324473
EST:     AGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATG                         GAGTGCAATCTCTACCAACTTATGAAGGATAGAGTCAAGCCTTTCTCAGAG
genomic: AGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATGgtacttaagg ... gttcttccagGAGTGCAATCTCTACCAACTTATGAAGGATAGAGTCAAGCCTTTCTCAGAG
EST: gi|88406810|gb|CI604004.1|CI604004
EST:     AGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATG                         GAGTGCAATCTCTACCAACTTATGAAGGATAGAGTCAAGCCTTTCTCAGAG
genomic: AGGAGGTTATAAGGGAAAATGACATATTATACTTCATAATGGAATACATGgtacttaagg ... gttcttccagGAGTGCAATCTCTACCAACTTATGAAGGATAGAGTCAAGCCTTTCTCAGAG