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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattttctcctgtccaatacattcagaaacttgccaagaacaaaaaacaaggaaaaatgatattttcttttactaatattgtcatgattgattttgcttgtagGTGTGGAAGTTTCTCCACTTAGCTCCTATGCTGGAGAAAACTTGGAAGCCATTTGCCGCGGACGGACATTCCATGCGCCGAGTGAGATTTCCTTCTAGGT

Basic information

species Oryza sativa
transcript LOC_Os04g52370.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g52370.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G044629_T03 (Zea mays), 3'ss of exon 13
gtaaattttctcctgtccaatacattcagaaacttgccaagaacaaaaaacaaggaaaaatgatattt-tcttttactaatattgtcatgatt--gattttgcttgtagGTGTGGAAGTTTCTCCACTTAGCTCCTATGCTGGAGAAAACTTGGAAGCCATTTGCCGCGGACGGACATTCCATGCGCCGAGTGAGATTTCCTTCTAGGT
                       | | |    || |    || |    |  | | |   ||    ||| |||  |     | |||   || ||    |  | || ||||| || ||||||||||| ||   |||||| || ||||| ||| |||||||||| ||||| || || || |||||||||||||| ||||| || || |||| 
---------------------gtaattaagcgctcgtagtgagcttgta-tatgcatgtatatcgtttctctggtgacgcttttgctttgcttccactcctactcgtagGCGTCGAAGTTTCTCCGCTCTCCTCCTACGCCGGAGAGAACCTGGAAGCCATCTGCCGTGGGCGAACGTTCCATGCGCCGAGCGAGATCTCGTTTTAGGA
















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|3768106|gb|AU032133.1|AU032133
EST:     AGTTGCTGCTGGTGGCTTCTTGACCCATTCTGTCCCATTGTACATGACAG                         GTGTGGAAGTTTCTCCACTTAGCTCCTATGCTGGAGAAAACTTGGAAGCCA
genomic: AGTTGCTGCTGGTGGCTTCTTGACCCATTCTGTCCCATTGTACATGACAGgtaaattttc ... ttgcttgtagGTGTGGAAGTTTCTCCACTTAGCTCCTATGCTGGAGAAAACTTGGAAGCCA
EST: gi|88961150|gb|CI096554.1|CI096554
EST:     AGTTGCTGCTGGTGGCTTCTTGACCCATTCTGTCCCATTGTACATGACAG                         GTGTGGAAGTTTCTCCACTTAACTCCTATGCTGGAGAAAACTTGGAAGCCA
genomic: AGTTGCTGCTGGTGGCTTCTTGACCCATTCTGTCCCATTGTACATGACAGgtaaattttc ... ttgcttgtagGTGTGGAAGTTTCTCCACTTAGCTCCTATGCTGGAGAAAACTTGGAAGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaggaaaaatgatattttcttttactaatattgtcatgattgattttgcttgtagGTGTGGAAGTTTCTCCACTTAGCTCCTATGCTGGAGAAAACTTGGAAGCCATTTGCCGCGGACGGACATTCCATGCGCCGAGTGAGATTTCCTTCTAGGT
                                           ttttgctt  CT-rich tract
     aaaatgatattttctt  TA-rich tract