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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgtcatgacaagtagcctgccttgtgttattcttttacatttttttcctgccttttcttctcatgatcagtagggtatccatcttactcacattttcttgtagGGGTTATCCTTTGCATTCCCTATCCCCAGTCAATATACAAATTTGTTTACCAATGGGGAAG

Basic information

species Oryza sativa
transcript LOC_Os06g49990.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49990.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G116434_T01 (Zea mays), 3'ss of exon 5
gtacgtcatgacaagtagcctgccttgtgttattcttttacatttttttcctgccttttcttctcatgatcagtagg-gtatccatcttactcacattttcttgtagGGGTTATCCTTTGCATTCCCTATCCCCAGTCAATATACAAATTTGTTTACCAATGGGGAAG
||| ||||||| || ||||   ||          |||| |||  |  |  ||   |||  | | | || || || || |  |   |||||||   |   | |||||||| |||||||| ||||||||||| ||||| || ||||||||| | || || ||||| ||||
gtatgtcatga-aaatagctccccc---------ctttcacagctcat--cttgttttcttccccttggtctgttggtgggtttgtcttactggtaagcttttgtagGGTTTATCCTTCGCATTCCCTATTCCCAGCCAGTATACAAATCTATTCACTAATGGAGAAG
















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|11442702|gb|BF430605.1|BF430605
EST:     TCCCGGGTATATATGACAAAGAGAGGGGCATTTACACCCTCTTCTATCCA                         GGGTTATCCTTTGCATTCCCTATCCCCAGTCAATATACAAATTTGTTTACC
genomic: TCCCGGGTATATATGACAAAGAGAGGGGCATTTACACCCTCTTCTATCCAgtacgtcatg ... tttcttgtagGGGTTATCCTTTGCATTCCCTATCCCCAGTCAATATACAAATTTGTTTACC
EST: gi|33675671|gb|CF303910.1|CF303910
EST:     TCCCGGGTATATATGACAAAGAGAGGGGCATTTACACCCTCTTCTATCCA                         GGGTTATCCTTTGCATTCCCTATCCCCAGTCAATATACAAATTTGTTTACC
genomic: TCCCGGGTATATATGACAAAGAGAGGGGCATTTACACCCTCTTCTATCCAgtacgtcatg ... tttcttgtagGGGTTATCCTTTGCATTCCCTATCCCCAGTCAATATACAAATTTGTTTACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccttttcttctcatgatcagtagggtatccatcttactcacattttcttgtagGGGTTATCCTTTGCATTCCCTATCCCCAGTCAATATACAAATTTGTTTACCAATGGGGAAG
                                    tactcac  putative branch site (score: 1)
                                          cattttctt  CT-rich tract
                                           attttctt  TA-rich tract