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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaattttaagggctcagatggcatcagtgtttttactttatcttccacgcctttctgtagcttatacttggtttactgatgctaagaattaggtgtgctatgttgttctgcacttctgcgcattttaaccgtgtctctgatcattcatgtcttcgttcatttctgtatttcactagGGCTTGGTGCAGCCTGGAAGGTTGCTGATATCTCGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCT

Basic information

species Oryza sativa
transcript LOC_Os02g42520.3
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g42520.3 (Oryza sativa), 3'ss of exon 4
lower sequence: GLYMA09G29070.1 (Glycine max), 3'ss of exon 4
gtgaattttaagggctcagatggcatcagtgtttttactttatcttccacgcctttctgtagcttatacttggtttactgatgctaagaat-taggtgtgctatgttgttctgcacttctgcgcattttaaccgtgtctctgatcattcatgtcttcgtt-catttctgtatttcactagGGCTTGGTGCAGCCTGGAAGGTTGCTGATATCTCGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCT
                                                                          ||||   ||  ||     ||| |    | |  ||||      |  ||   || |||  | | | | || | |||   |   || || ||||||       ||||||| ||||||||||| ||||| ||||||||| | || || || || | |||||| || ||||| ||||||||||| || || |||
-------------------------------------------------------------------------gttaccagtgtcaaagccgtagatcccatttagtgtttgatgttattg-atatattattcat-tttttgttgattatgggactcattgcatttcaa-----cactagGTCTTGGTGCAGCATGGAATGTTGCTGATGTGTCAAAAGGATCAACTGTGGTGATTTTTGGTCTTGGAACTGTTGGCCTATCT
















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|29617893|gb|CB622905.1|CB622905
EST:     AACCGTGCCGATGGACAGGATATGCCTGCTGAGCTGTGGTGTATCTGCAG                         GGCTTGGTGCAGCCTGGAAGGTTGCTGATATCTCGAAGGGGTCGAGTGTGG
genomic: AACCGTGCCGATGGACAGGATATGCCTGCTGAGCTGTGGTGTATCTGCAGgtgaatttta ... atttcactagGGCTTGGTGCAGCCTGGAAGGTTGCTGATATCTCGAAGGGGTCGAGTGTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttaaccgtgtctctgatcattcatgtcttcgttcatttctgtatttcactagGGCTTGGTGCAGCCTGGAAGGTTGCTGATATCTCGAAGGGGTCGAGTGTGGTTATATTTGGCCTTGGAACTGTAGGGCTTTCT
                                              tttcact  CT-rich tract
                                  ttcattt  TA-rich tract