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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtccattgaaccaaccatctccgaatgatgccgtggccttcgctgctgcctctccttgcctaactccctgtacatcgatcagGCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAACGTGACGCAGCGCGCCGCGGCGGCGCCGTACTCGACGAGCCTTGTCAAG

Basic information

species Oryza sativa
transcript LOC_Os03g21230.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g21230.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G023715_T02 (Zea mays), 3'ss of exon 14
gtgagtccattgaaccaaccat-ctccgaatgatgccg-tggccttcg--ctgctgcctctccttgcctaactccctgtacatcgatcagGCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAACGTGACGCAGCGCGCCGCGGCGGCGCCGTACTCGACGAGCCTTGTCAAG
|||||  |      ||  ||   ||||   || | | | |||  | |   |||  || ||||| | |  | | | || |  ||   |||||||||||||||||||||||||||| || ||||| |||||||  ||||||| || |||||||||  |   | ||||||| |||||||||||||| || |||
gtgagcgcccgcctccgcccccactcctgctgcttctgctggattacattctgtggcatctccat-ctgatccctctctggattattcagGCTGGCCGGGAACCCGGTGTGCGAGCGCCTGCCCAACACGCCCTACTGCAGCGCGACGCAGCGGCCGCTGTCGGCGCCCTACTCGACGAGCCTGGTGAAG
















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|58693068|gb|CK081755.1|CK081755
EST:     AACCAGCTCTCCTCCGTCACGGTCACCGCCAGCTACAACGGCACCCTTTC                         GCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAA
genomic: AACCAGCTCTCCTCCGTCACGGTCACCGCCAGCTACAACGGCACCCTTTCgtgagtccat ... catcgatcagGCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAA
EST: gi|29655717|gb|CB651992.1|CB651992
EST:     AACCAGCTCTCCTCCGTCACGGTCACCGCCAGCTACAACGGCACCCTTTC                         GCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAA
genomic: AACCAGCTCTCCTCCGTCACGGTCACCGCCAGCTACAACGGCACCCTTTCgtgagtccat ... catcgatcagGCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAA
EST: gi|58683131|gb|CK071818.1|CK071818
EST:     AACCAGCTCTCCTCCGTCACGGTCACCGCCAGCTACGACGGCACCCTTTC                         GCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGGACTGCAA
genomic: AACCAGCTCTCCTCCGTCACGGTCACCGCCAGCTACAACGGCACCCTTTCgtgagtccat ... catcgatcagGCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgccgtggccttcgctgctgcctctccttgcctaactccctgtacatcgatcagGCTGGCCGGGAACCCGGTGTGCGACCGGCTGCCGAACACGCAGTACTGCAACGTGACGCAGCGCGCCGCGGCGGCGCCGTACTCGACGAGCCTTGTCAAG
                              gcctaac  putative branch site (score: 2)