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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGATATCCTTACGAAGAAATACTGAGAACATTTCACAACCAAACAGACAATGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctgttccccctttgcctctctttttttctctctagccacaaatggaagttaaacaatgggaggtttacag

Basic information

species Oryza sativa
transcript LOC_Os03g52630.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g52630.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G110735_T01 (Zea mays), 5'ss of exon 4
GGATATCCTTACGAAGAAATACTGAGAACATTTCACAACCAAACAGACAATGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctgttccccctttgcctctctttttttctctctagccacaaatggaagttaaacaatgggaggttt-acag
|| || |||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||| ||||||||  | | ||||||||||||||| || |||||| |||| ||| || ||||    | |||   || ||  ||   |||| |   ||| |||   |||  |  |||  |||
GGGTACCCTTACGAAGAAATACTGAGGACATTCCACAACCAAACCGACAATGTTATGTGCTCATATCTGCCTCTATTCAATTCATTCAACTTCACTAAAGgttggtgatgtccctccttg---tttctaccttccttgctg--cacagaataaagctaagagatgcaacattttgcag

upper sequence: LOC_Os03g52630.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G147849_T01 (Zea mays), 5'ss of exon 4
GGATATCCTTACGAAGAAATACTGAGAACATTTCACAACCAAACAGACAATGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctgtt-----ccccctttgcctctctttttttctctcta---gccacaaatggaagttaaacaatgggaggtttacag------
|| || |||||||||||||||||||| ||||| ||||||||||| ||||| || |||||||||||| | ||  | | ||||||||||||||| ||||||||| |||| || |     ||| || ||  |||||  || |  ||| |     || |  |   || ||| ||||||||  |||          
GGGTACCCTTACGAAGAAATACTGAGGACATTCCACAACCAAACCGACAACGTCATGTGCTCGTATTTACCTGTATTCAATTCATTCAACTTCACCAAAGgttggtgatggtgatgtccctctctgtttctctgcttcttgctccacagaacagagcttttagctaagcaatgggacattttttttcgcag
















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|58670607|gb|CK059293.1|CK059293
EST:     TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAG                         GAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
genomic: TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctg ... aggtttacagGAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
EST: gi|27576324|gb|CA999018.1|CA999018
EST:     TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAG                         GAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
genomic: TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctg ... aggtttacagGAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
EST: gi|29639818|gb|CB644827.1|CB644827
EST:     TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAG                         GAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
genomic: TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctg ... aggtttacagGAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
EST: gi|58663082|gb|CK051768.1|CK051768
EST:     TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAG                         GAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
genomic: TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctg ... aggtttacagGAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
EST: gi|396941140|gb|HO188349.1|HO188349
EST:     TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAG                         GAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
genomic: TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctg ... aggtttacagGAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
EST: gi|7593822|gb|AU066038.2|AU066038
EST:     TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAG                         GAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG
genomic: TGTTATGTGCTCGTATCTGCCGATGTACAATTCATTCAACTTTACCAAAGgtcggtgctg ... aggtttacagGAGGAATGATACAGCTCAACCACGGAAGGCCTCAGCCACTTCAGTATGTTG