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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttatggttcttttttttttttgaccaagtatggatgtctctttaaccttttcccttgccttgtgttaacaaaaccatctattttggttgttatattagGAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTT

Basic information

species Oryza sativa
transcript LOC_Os06g49990.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 12
lower sequence: GRMZM2G116434_T01 (Zea mays), 3'ss of exon 12
tgttatggttcttttttttttttgaccaagtatggatgtctcttta---accttttcccttgccttg-tgttaacaaaaccatctattttggttgttatattagGAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTT
   |     |        ||   |  |  |||||  | |||  ||     || | |    |   ||  ||||     ||| | |  ||    ||  |||||||||||||||| ||||| ||||| ||||| ||||||||||| |||||||||||||| ||||||||||| ||||||||||| ||||| ||||||||||| ||||
---tcaacctagcaacgcttcaagtgccggtatgc-tatcttattgcgtgccatctgttatatttttctgttcttttaacaaccctttggtattactatattagGAGATCCTCGGTGACTGTGGCCGAGCTGCAATCCAGACACAAGGCTCCATGAACAATCCATTTGGATCAACTTTTGTATATGGTTATCAGAATATCGCTT

upper sequence: LOC_Os06g49990.3 (Oryza sativa), 3'ss of exon 12
lower sequence: Vv04s0023g02970.t01 (Vitis vinifera), 3'ss of exon 12
tgttatggttcttttttttttttgaccaagtatggatgt-ctctttaaccttttcccttgccttgtgtta--acaaaaccatctattttggttgttatattagGAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTT
     || ||| ||   | | | |    ||  ||    | |||  |  |  ||   | ||| |    |||   |   |  |       ||    |  | | |||| |||||||| || ||||| || ||||| || || |||||||| || |  || ||||||||||| || |||||||| ||||| ||||| ||| |||| |
--aagtgattcattccctatatagtttcaggttgctccttctccgtttctgttcttcatgcttcaaattatggctttaataaaagaaatgaacttcctgt-agGAAATCCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCAT
















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|88508220|gb|CI435726.1|CI435726
EST:     CCTAAGAGTTGCATAACGCCTCGCACAAAGTGGGAACAAGTCAAG                         GAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATG
genomic: CCTAAGAGTTGCATAACGCCTCGCACAAAGTGGGAACAAGTCAAGgtatggtggt ... gttatattagGAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATG
EST: gi|33687914|gb|CF316153.1|CF316153
EST:     GTATCCCTAAGAGTTGCATAACGCCTCGCACAAAGTGGGAACAAGTCAAG                         GAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATG
genomic: GTATCCCTAAGAGTTGCATAACGCCTCGCACAAAGTGGGAACAAGTCAAGgtatggtggt ... gttatattagGAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATG
EST: gi|88249403|gb|CI249252.1|CI249252
EST:     GTATCCCTAAGAGTTGCATAACGCCTCGCACAAAGTGGGAACAAGTCAAG                         GAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATG
genomic: GTATCCCTAAGAGTTGCATAACGCCTCGCACAAAGTGGGAACAAGTCAAGgtatggtggt ... gttatattagGAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATG
EST: gi|33687915|gb|CF316154.1|CF316154
EST:     GTATCCCTAAGAGTTGCATAACGCCTCGCACAAAGTGGGAACAAGTCAAG                         GAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATG
genomic: GTATCCCTAAGAGTTGCATAACGCCTCGCACAAAGTGGGAACAAGTCAAGgtatggtggt ... gttatattagGAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaccttttcccttgccttgtgttaacaaaaccatctattttggttgttatattagGAGATCCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTT
                   tgttaac  putative branch site (score: 2)
                                           ttgttatatta  TA-rich tract