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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtactactccttccatctcttctgcggatacctatctgttagtatcttctttgcccactaattaacactaatatcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCAACCCCATCATGTCTGACGCTGAATTCGACCAACTCAAACTCAGATTGAA

Basic information

species Oryza sativa
transcript LOC_Os03g64020.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g64020.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G896082_T03 (Zea mays), 3'ss of exon 3
---------------------------gtaagtactactccttccatctcttctgcggatac-----ctatctgtta----gtatcttctttgcccactaattaacactaatatcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCAACCCCATCATGTCTGACGCTGAATTCGACCAACTCAAACTCAGATTGAA
                            ||| | |     ||    ||  |       | |      ||| |    |    ||  | ||  | |  ||||  |  |  |    | ||| ||| |   || || |||   ||  | ||||| ||| |||||||| |  |||||||||| ||||||||||| ||||| |||||| |||| ||||| ||||| ||
gtaagcatttttagttaatttgctccactaactgcctgctctcaagtccttgaaaaaaaaattaatgctaacccccaaggtgtggcgtcgatacaaactacgttcctgtgtgttgtttccagACGAAGATGAGCAAAAGCTTTTGGAAGCTTCCTTGGCCTATACCTCCGGCAACCCAATCATGTCTGATGCTGAGTTCGACGAACTGAAACTTAGATTAAA
















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|117243743|gb|CT843209.1|CT843209
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|218487328|gb|FG968259.1|FG968259
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|58694129|gb|CK082816.1|CK082816
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|157651887|gb|EX451521.1|EX451521
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|58690623|gb|CK079310.1|CK079310
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|58692378|gb|CK081065.1|CK081065
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|58591285|gb|CF989593.1|CF989593
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|33801214|gb|CF326480.1|CF326480
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|58689767|gb|CK078454.1|CK078454
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|29687940|gb|CB684215.1|CB684215
EST:     GGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: GGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|29687939|gb|CB684214.1|CB684214
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
EST: gi|58606048|gb|CK034081.1|CK034081
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACA
EST: gi|313081134|gb|HO213720.1|HO213720
EST:     CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAA                         GCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA
genomic: CAACCTCAAGGAGGAGCTCATGTGGGAAGGCAGCAGCGTTGTCATGCTAAgtaagtacta ... atcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atacctatctgttagtatcttctttgcccactaattaacactaatatcttttcagGCCCTGACGAACAACGCCTGCTCGAAGCCTCCATGGCCTATGCTGCCGGCAACCCCATCATGTCTGACGCTGAATTCGACCAACTCAAACTCAGATTGAA
                                      cactaat  putative branch site (score: 2)
                                            tatcttttc  CT-rich tract
                               taattaacactaatat  TA-rich tract