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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtgagaaaaatattttgcattgctatttatctaatgatacagaaacgggcattgcaatctgttcagttcattctaaaacagtgaaagtacaaactggaatcagttttcacctctataacagcttacagctgcacaatattgtttcacaaaactaatggacaaatgttttggaaaagGCAAGGGGTCAGATACTTGGAGAAGATGGGGTGCGTGTCCACAGTATGGTTCTACCAGGCCTTGCTTCCAGTACATCGATCCATTTCTCGGGCCCTGGAG

Basic information

species Oryza sativa
transcript LOC_Os03g02690.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02690.2 (Oryza sativa), 3'ss of exon 7
lower sequence: AT5G52100.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaagtgtgagaaaaatattttgcattgctatttatctaatgatacagaaacgggcattgcaatctgttcagttcattctaaaacagtgaaagtacaaactggaatcagttttcacctctataacagcttacagc----tgcacaatattgtttcacaaaactaa--tggacaaatgttttggaaaagGCAAGGGGTCAGATACTTGGAGAAGATGGGGTGCGTGTCCACAGTATGGTTCTACCAGGCCTTGCTTCCAGTACATCGATCCATTTCTCGGGCCCTGGAG
                                                                                            ||| || |  |||| || || ||  | |  | ||| |          | || | |||   |  ||||| || |  |   || || |||      ||||||| |||||  || | |||||||| ||||| ||||| |||||||||||||||||||| ||  | || ||||||    || | |||||  | || ||||
--------------------------------------------------------------------------------------------gta-aagcatgaataagcttgcagatatggaccagttagggatcctgtacatattatacataaacaaagctgagttttccacatatttcc----agGCAAGAGGTCAAGTAATCGGAGAAGACGGGGTTCGTGTTCACAGTATGGTTCTACCAGGACTACCATCTAGTACACAAGTCTACTTCTCAAGTCCAGGAG
















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|27546884|gb|CA764989.2|CA764989
EST:     AGATCTTGGTCAGATATACAACAGGGAAGATATGGGACTTCGATAATNCA                         GCAAGGGGTCAGATACTTGGANAANATGGGGTGCGTGTNCACAGTATGGNT
genomic: AGATCTTGGTCAGATATACAACAGGGAAGATATGG-ACTCCGATAATCCAgtaagtgtga ... tttggaaaagGCAAGGGGTCAGATACTTGGAGAAGATGGGGTGCGTGTCCACAGTATGGTT
EST: gi|29684781|gb|CB681056.1|CB681056
EST:     CAGATCTTGGTCAGATATACAACAGGGAAGATATGGACTCCGATAATCCA                         GCAAGGGGTCAGATACTTGGAGAAGATGGGGTGCGTGTCCACAGTATGGTT
genomic: CAGATCTTGGTCAGATATACAACAGGGAAGATATGGACTCCGATAATCCAgtaagtgtga ... tttggaaaagGCAAGGGGTCAGATACTTGGAGAAGATGGGGTGCGTGTCCACAGTATGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttacagctgcacaatattgtttcacaaaactaatggacaaatgttttggaaaagGCAAGGGGTCAGATACTTGGAGAAGATGGGGTGCGTGTCCACAGTATGGTTCTACCAGGCCTTGCTTCCAGTACATCGATCCATTTCTCGGGCCCTGGAG
                            aactaat  putative branch site (score: 2)
             aatattgttt  TA-rich tract