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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgttaaccgagtcatcggtctatcgatttttttccctttccatctatttatctctgagtttttattttcttgggggtcctgttgcagGTTGGCGTTCAGGTGGGACGAGCTCGGGAGGGAGATCATGGGGATTGCGGTGCCCGGCGCGCTCGCCCTCATGGCTGACCCGGTCGCCTCGCTCGTCGAC

Basic information

species Oryza sativa
transcript LOC_Os10g13940.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g13940.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM5G870170_T02 (Zea mays), 3'ss of exon 1
------------gttgttaacc--gagtcatcggtctatcg--atttttttccctttccatcta----tttatctctgagt-----ttttattttcttgggggtcctgttgcagGTTGGCGTTCAGGTGGGACGAGCTCGGGAGGGAGATCATGGGGATTGCGGTGCCCGGCGCGCTCGCCCTCATGGCTGACCCGGTCGCCTCGCTCGTCGAC
             |   | |||  | | |||| |    ||   ||      |||     | |||    || |  | | | |     || |||||||        ||   | |||| | || ||||| ||||||||||||||   |||||||||| |||| |||||||||||||||||||| |||||||||||||| |||||||| |||||||||
gtgagcccgcccatccatgaccacggggcatctgctggtcttcatcgccaccccagcaaaactaagggttcaaatttaaatagcccttatattttcccttcttcccgtctccagGCTCGCATTCAGATGGGACGAGCTCGGTCAGGAGATCATGAGGATCGCGGTGCCCGGCGCGCTCGCGCTCATGGCTGACCCAGTCGCCTCCCTCGTCGAC
















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|88315027|gb|CI610086.1|CI610086
EST:     CCCGGCCACCGCCACCACCACCCGCTTAGCGTCTTCCTCCGGGACGCCAG                         GTTGGCGTTCAGGTGGGACGAGCTCGGGAGGGAGATCATGGGGATTGCGGT
genomic: CCCGGCCACCGCCACCACCACCCGCTTAGCGTCTTCCTCCGGGACGCCAGgttgttaacc ... cctgttgcagGTTGGCGTTCAGGTGGGACGAGCTCGGGAGGGAGATCATGGGGATTGCGGT
EST: gi|88434319|gb|CI589384.1|CI589384
EST:     CCCGGCCACCGCCACCACCACCCGCTTAGCGTCTTCCTCCGGGACGCCAG                         GTTGGCGTTCAGGTGGGACGAGCTCGGGAGGGAGATCATGGGGATTGCGGT
genomic: CCCGGCCACCGCCACCACCACCCGCTTAGCGTCTTCCTCCGGGACGCCAGgttgttaacc ... cctgttgcagGTTGGCGTTCAGGTGGGACGAGCTCGGGAGGGAGATCATGGGGATTGCGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccctttccatctatttatctctgagtttttattttcttgggggtcctgttgcagGTTGGCGTTCAGGTGGGACGAGCTCGGGAGGGAGATCATGGGGATTGCGGTGCCCGGCGCGCTCGCCCTCATGGCTGACCCGGTCGCCTCGCTCGTCGAC
                                            tcctgtt  CT-rich tract
                        agtttttattttctt  TA-rich tract