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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtacaactaatgataaaatttgccttttggatatgttgaacagttcattttctgcaatctactttatactaaccttttattgtctatcctatatatcaagGCACTCCGGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTGTATGCCTTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGC

Basic information

species Oryza sativa
transcript LOC_Os03g01890.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g01890.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G109987_T05 (Zea mays), 3'ss of exon 9
-----------gtacaactaatgataaaatttgccttt-tggatatgtt-gaacagttcattttctgcaatctactttatactaaccttttattgtctatcctatatatcaagGCACTCCGGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTGTATGCCTTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGC
           |    |   ||| |   ||||   | |  | || |||| ||| |||||||| |  ||| | ||||| || ||| |             | || | |||| ||||||| || ||| | |||||||||||||||||||||||||| ||||| ||||| |||||||| |||||||| ||||| |||||||| ||||||||||| |
agtaatgactggctgtatacatggttgcatttagttctgcgtatgtgtttgaatagttcattcttagcattatacttcatgctagc-------------tgctgtgtatccagGCACTGCGCCACCTTAGACAAATTGCTCAAGAAACAAGTGGAGAAGTAGTGTACGCCTTGGGAAGGCAACCTGCAGTCCTACGGACCTTTAGTCAAAGAC

upper sequence: LOC_Os03g01890.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G042250_T03 (Zea mays), 3'ss of exon 10
----gtacaactaatgataaaatttgccttttggatatgttgaacagttc--attttctgcaatctactttatactaaccttttattgtctatcctatatatcaagGCACTCCGGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTGTATGCCTTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGC
    |||| | |  || |   ||||    ||| | |  |  ||   |||   ||  |     ||   |  ||||||||     |  |  ||   ||   |||  ||||||| || ||| | |||||||||||||||||||||||||| ||||| |||||||||||||| |||||||| ||||| |||||||| ||||||||||| |
ggctgtactatt--tggttgcatttagggtttagttccgcggatgtgtttgaatagttcattattagcactatactaaa----tgctagctgctctgcgtattcagGCACTGCGCCACCTTAGACAAATTGCTCAAGAAACAAGTGGAGAAGTAGTGTATGCCTTGGGAAGGCAACCTGCAGTTCTACGGACCTTTAGTCAAAGAC
















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|58669023|gb|CK057709.1|CK057709
EST:     GGCCACTCTATGAATCTTCCAGGGTAGTCGCTCAGAAAATGACTACTGCG                         GCACTCCGGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTG
genomic: GGCCACTCTATGAATCTTCAAGGGTAGTCGCTCAGAAAATGACTACTGCGgtaagctgtc ... atatatcaagGCACTCCGGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattttctgcaatctactttatactaaccttttattgtctatcctatatatcaagGCACTCCGGCACATCAGACAAATTGCTCAAGAAACAAGTGGGGAAGTGGTGTATGCCTTGGGGAGGCAACCAGCAGTGCTACGGACTTTTAGTCAAAGGC
                     tactaac  putative branch site (score: 0)
                 tttatactaa  TA-rich tract