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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtcacttataccatcaattgcagtattcttggttgttttatgttttgaatgactttactctccctaatggtctgctaatgtttgtccatatattcagGTAATGAGTGTTAAAGCTCTTGGTACATCCTTAAAGTTGACGTTTGAGGGGACAAATCAGTTGGTATATCCAGAGACTTGGTTCTTTGTGCTTATAGTGG

Basic information

species Oryza sativa
transcript LOC_Os05g43790.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g43790.2 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G120175_T03 (Zea mays), 3'ss of exon 5
gtaatgtcacttataccatcaattgcagtattct-tggttgttttat-----gttttgaatgactttactctcc-----ctaatggtc-tgctaatgtttgtccata---tattcagGTAATGAGTGTTAAAGCTCTTGGTACATCCTTAAAGTTGACGTTTGAGGGGACAAATCAGTTGGTATATCCAGAGACTTGGTTCTTTGTGCTTATAGTGG
|||||||||||| | |||    ||    | |||| |   |||||  |     || ||||   | | || ||| |     |||  | |  ||||||  |||   |      ||||||||| ||||||||||||||||||||||||||  ||||| | || |||||||| ||||| || ||  ||||||||||||||||||||||| ||||| | ||||
gtaatgtcacttctgccagtggttcatatgttctctaaatgtttagtcgattgtattgatgtattctaatctactcgtgctagggattgtgctaactttttctctctcattattcagGTTATGAGTGTTAAAGCTCTTGGTACATCACTAAAGCTTACTTTTGAGGGAACAAACCAATTAATATATCCAGAGACTTGGTTCTTTATGCTTGTTGTGG
















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|218503663|gb|FG954349.1|FG954349
EST:     CAAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGTTCTCTTTCG                         GTAATGAGTGTTAAAGCTCTTGGTACATCCTTAAAGTTGACGTTCGAGGGG
genomic: CAAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGTTCTCTTTCGgtaatgtcac ... atatattcagGTAATGAGTGTTAAAGCTCTTGGTACATCCTTAAAGTTGACGTTTGAGGGG
EST: gi|33662767|gb|CF293734.1|CF293734
EST:     CAAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGTTCTCTTTCG                         GTAATGAGTGTTAAAGCTCTTGGTACATCCTTAAAGTTGACGTTTGAGGGG
genomic: CAAATGTGTTGATCTACACTGCCATTTGCTCTTTGATGGGTTCTCTTTCGgtaatgtcac ... atatattcagGTAATGAGTGTTAAAGCTCTTGGTACATCCTTAAAGTTGACGTTTGAGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgaatgactttactctccctaatggtctgctaatgtttgtccatatattcagGTAATGAGTGTTAAAGCTCTTGGTACATCCTTAAAGTTGACGTTTGAGGGGACAAATCAGTTGGTATATCCAGAGACTTGGTTCTTTGTGCTTATAGTGG
                              tgctaat  putative branch site (score: 2)
                                             atatattca  TA-rich tract