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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcatcgattcctcctcttcttcttcttctccttctgctcatcttatcgatcgatctcttcttctccagGATCTTCGGGAACCAGCTCCTGTTCCTGCTGGGCCTCAGCTTCACCAACGCCTCCTACGCCGCAGCCTTCCAGCCAGCCATACCGGTGTTCACATTCCTC

Basic information

species Oryza sativa
transcript LOC_Os06g49500.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49500.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G134930_T02 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------gtattcatcgattcctcctcttcttcttcttctccttctgctcatcttatcgatcgatctcttcttctccagGATCTTCGGGAACCAGCTCCTGTTCCTGCTGGGCCTCAGCTTCACCAACGCCTCCTACGCCGCAGCCTTCCAGCCAGCCATACCGGTGTTCACATTCCTC
                                                                     || | ||||    |   | |||  |           |         || ||   | | ||   || |  |||||||||||||||||||||||| ||||| ||||||||| ||||||||||||||||||||||||| || |||||||| ||||||||||||||||| ||||||
gtgatttttccagccatctttcacttttttttttggttcctaatctttcactgtgtaaatctacatatagtttccatcaccactaacccttgctggaggaactaatgaaacggctttctcctcctaccttgcctgccgcagGATCTTCGGGAACCAGCTCCTCTTCCTCCTGGGCCTCGGCTTCACCAACGCCTCCTACGCCGCGGCGTTCCAGCCGGCCATACCGGTGTTCACGTTCCTC

upper sequence: LOC_Os06g49500.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G134930_T03 (Zea mays), 3'ss of exon 1
----------------------------gtattcatcgattcctcctcttcttcttcttctccttctgctcatcttatcgatcgatctcttcttctccagGATCTTCGGGAACCAGCTCCTGTTCCTGCTGGGCCTCAGCTTCACCAACGCCTCCTACGCCGCAGCCTTCCAGCCAGCCATACCGGTGTTCACATTCCTC
                            || | ||||    |   | |||  |           |         || ||   | | ||   || |  |||||||||||||||||||||||| ||||| ||||||||| ||||||||||||||||||||||||| || |||||||| ||||||||||||||||| ||||||
aatctttcactgtgtaaatctacatatagtttccatcaccactaacccttgctggaggaactaatgaaacggctttctcctcctaccttgcctgccgcagGATCTTCGGGAACCAGCTCCTCTTCCTCCTGGGCCTCGGCTTCACCAACGCCTCCTACGCCGCGGCGTTCCAGCCGGCCATACCGGTGTTCACGTTCCTC
















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|88299404|gb|CI572356.1|CI572356
EST:     CCCCTCACCCCTCACCTCCTCGCCTCCTTCGCTCTCCTCGGCTTCACCGG                         GATCTTCGGGAACCAGC
genomic: CCCCTCACCCCTCACCTCCTCGCCTCCTTCGCTCTCCTCGGCTTCACCGGgtattcatcg ... tcttctccagGATCTTCGGGAACCAGC
EST: gi|88404245|gb|CI575733.1|CI575733
EST:     CCCCTCACCCCTCACCTCCTCGCCTCCTTCGCTCTCCTCGGCTTCACCGG                         GATCTTCGGGAACCAGCTCCTGTTCCTGCTGGGCCTCACCTTCACCAA
genomic: CCCCTCACCCCTCACCTCCTCGCCTCCTTCGCTCTCCTCGGCTTCACCGGgtattcatcg ... tcttctccagGATCTTCGGGAACCAGCTCCTGTTCCTGCTGGGCCTCAGCTTCACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttcttcttcttctccttctgctcatcttatcgatcgatctcttcttctccagGATCTTCGGGAACCAGCTCCTGTTCCTGCTGGGCCTCAGCTTCACCAACGCCTCCTACGCCGCAGCCTTCCAGCCAGCCATACCGGTGTTCACATTCCTC
                                    tcgatctcttcttctc  CT-rich tract
                          atcttat  TA-rich tract