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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggctgtgtgctatgtagcattttcgttactggtactttatggatcttttgaactcatctcatatcatttcctttgctttgatctgcttttgttccgacattccttaaaactgctggggtgttgatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGTAATCGAGGACTCCTT

Basic information

species Oryza sativa
transcript LOC_Os10g32730.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g32730.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G027115_T01 (Zea mays), 3'ss of exon 6
gtaaggctgtgtgctatgtagcattttcgttactggtactttatggatcttttgaactcatctcatatcatttcctttgctttgatctgcttttgttccgacattccttaaaactgctggggtgttgatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGTAATCGAGGACTCCTT
                                 |   |  | |||       |||   || |   |   | | |   |   || ||    | |  ||     ||| || | |  || ||  ||| || | ||||||||||||||||||||||||  |||||||      |||| |||||||||||||||| ||||| |||||
--------------------------------gtaagatatcatg--ctgcatgatgccaccatctcatactccagattgattaatgca-tctcattatcttatttctgata--tgttgatgtgatggtgttcaagATTTTTGGAAGCTGCAAAGAGAATGAACTGTGCTCCTTCAAATTGCTTAGTAATAGAGGATTCCTT
















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|157651850|gb|EX451484.1|EX451484
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGGAGCCATCCCCAGATAT                         ATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
EST: gi|29687643|gb|CB683918.1|CB683918
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATAT                         ATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
EST: gi|29671819|gb|CB668094.1|CB668094
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATAT                         ATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
EST: gi|29658982|gb|CB655257.1|CB655257
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATAT                         ATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
EST: gi|29629324|gb|CB634335.1|CB634335
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATAT                         ATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
EST: gi|58688816|gb|CK077503.1|CK077503
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATAT                         ATTTTTGGAAGC
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGC
EST: gi|29679504|gb|CB675779.1|CB675779
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATAT                         ATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
EST: gi|29623338|gb|CB628349.1|CB628349
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATAT                         ATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
EST: gi|29659012|gb|CB655287.1|CB655287
EST:     GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATAT                         ATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT
genomic: GCAATTGTTGGTGGTGATGAAGTAGAGAAGGGGAAGCCATCCCCAGATATgtaaggctgt ... gatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgatctgcttttgttccgacattccttaaaactgctggggtgttgatattcaagATTTTTGGAAGCTGCAAAACGAATGAATACAAATCCTCCAAATTGCTTAGTAATCGAGGACTCCTT
                                         tgttgat  putative branch site (score: 4)
                          ttaaaact  TA-rich tract