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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTCCAAATGGATAAGAAGTCATCGGGACTTACCTTTGAGGTGTAACCAGTGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaattgtttataaacccctccctgccctatttcctctagtgcctggcttgcaagctttgtcctcaatagtgcctgattgcctgcatcctaacaaa...

Basic information

species Oryza sativa
transcript LOC_Os12g25710.4
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g25710.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G094123_T01 (Zea mays), 5'ss of exon 5
TCTCCAAATGGATAAGAAGTCATCGGGACTTACCTTTGAGGTGTAACCAGTGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaattgtttataaacccctccctgccctatttcctctagtgcctggcttgcaagctt-tgtcctcaatagtgcctgattgcctgcatcctaacaaa
||||||||||||||||||| || || |||||||| ||||||||||| || |||||||| || ||  ||||||||||||||||||||||||| |||||||||||    |||  ||    | |       |   |           ||| || |||   |  |  ||| ||  |     |     | |   |   ||| ||| 
TCTCCAAATGGATAAGAAGCCACCGAGACTTACCCTTGAGGTGTAATCAATGGTGTAATGTTGTTAGATGGGAGTTTAGCAATCCAACTCCTTTCATAAGgtacctcatttcttggctagcaaatttagttatgcaattctctctgcatgccttattacttcatgttctacaagacactcccatactgtctaactagcaa-

upper sequence: LOC_Os12g25710.3 (Oryza sativa), 5'ss of exon 5
lower sequence: PP1S7_175V6.1 (Physcomitrella patens), 5'ss of exon 4
TCTCCAAATGGATAAGAAGTCATCGGGACTTACCTTTGAGGTGTAACCAGTGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtag---tcaattgtttataaacccctccctgccctatttcctctagtgcctggcttgcaagctttgtcctcaatagtgcctgattgcctgcatcctaacaaa
|| | ||||||||  |  ||||||| ||  | ||| | ||    ||||||||||||||||| ||||| ||||||||||   | || || || || || ||||     | ||         ||  |  |  |   |  |||||||  ||   ||   || ||| |         |         ||||  |  |   |     |
TCGCTAAATGGATTCGTGGTCATCGTGATCTTCCTCTTAGAATCAACCAGTGGTGTAACGTGGTGCGGTGGGAGTTTAAGCACCCCACCCCTTTTATCAGgtgagacttaacaaacccggaaatcgacttt-tgcagtttcctcgggt-tttgtactg-aagttgcaatgattaagtcattaaattgtttaaagtatcctcta

upper sequence: LOC_Os12g25710.3 (Oryza sativa), 5'ss of exon 5
lower sequence: EFJ15689 (Selaginella moellendorffii), 5'ss of exon 4
TCTCCAAATGGATAAGAAGTCATCGGGACTTACCTTTGAGGTGTAACCAGTGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaattgtttataaacccctccctgccctatttcctctagtgcctggcttgcaagctttgtcctcaatagtgcctgattgcctgcatcctaacaaa
|  | ||  ||||  |  ||||  | ||  | ||||| | |   ||||||||||||||||| || || ||||||||||   | |||||||| ||||||||||||    || |     |  | ||  |||   |  | |     ||   |  |||   ||                                         
TTGCTAAGAGGATTCGGGGTCACAGAGATCTTCCTTTCAAGATCAACCAGTGGTGTAACGTGGTTCGCTGGGAGTTTAAGCACCCAACTCCTTTCATAAGgtagc---ttctcctcgattctctttctgagatgatac-----gtaattctcttttcag-----------------------------------------

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|33794258|gb|CF323019.1|CF323019
EST:     TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAG                         GAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
genomic: TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaatt ... ttctccgcagGAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
EST: gi|58690340|gb|CK079027.1|CK079027
EST:     TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAG                         GAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
genomic: TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaatt ... ttctccgcagGAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
EST: gi|88312613|gb|CI587521.1|CI587521
EST:     TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAT                         GAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTTGCAACTAAAG
genomic: TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaatt ... ttctccgcagGAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTT-GCAACTAAAG
EST: gi|12404672|gb|AU166273.1|AU166273
EST:     TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAG                         GAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
genomic: TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaatt ... ttctccgcagGAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
EST: gi|33811197|gb|CF331488.1|CF331488
EST:     GATGGGAGTTTAGCAATCCAACTCCATTCATAAG                         GAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
genomic: GATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaatt ... ttctccgcagGAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
EST: gi|58674015|gb|CK062701.1|CK062701
EST:     TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAG                         GAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA
genomic: TGGTGTAACGTCGTGCGATGGGAGTTTAGCAATCCAACTCCATTCATAAGgtagtcaatt ... ttctccgcagGAGCCGTGAGTTCCTTTGGCAAGAAGGGCATACAGCTTTTGCAACTAAAGA