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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacccccatccctctctcttccctctgcgtgcgcttgtgcttttgcatgtccagcagtacctgaaatttgaaatccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGTGTGATTGCAATTATTGTTGTTAAG

Basic information

species Oryza sativa
transcript LOC_Os03g25390.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g25390.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G330650_T02 (Zea mays), 3'ss of exon 7
gtacccccatccctctctcttccctctgcgtgcgcttgtgcttttgcatgtcca-gcagtacctgaaatttgaaatc-----cttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGTGTGATTGCAATTATTGTTGTTAAG
| || |||    || ||||   |     | |   |    | |   ||| |  || ||| |  |||||| || ||  |      ||||||||||| ||||||||||| || |||||||| || || ||||| ||||  ||||||||||| || |||||||| |||
gcactccc---tctttctcagtctctgacatatacaaacggtga-gcacgcacaagcactgactgaaagttaaacacatgattttgcagGTTGCGACTGACAAATGTATCATGGCATTCCTCTTCCTGATCGTTTTGGGTGTGATTGCTATCATTGTTGTCAAG
















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|30227163|gb|CB965055.1|CB965055
EST:     TTGGGCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: TTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|27921131|gb|CB096939.1|CB096939
EST:     ACTTTTCGTTAAAGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: ACTTTTCGTTAAAGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|30228758|gb|CB966648.1|CB966648
EST:     TTGGGCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: TTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|88509241|gb|CI436747.1|CI436747
EST:     AGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: AGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|30228750|gb|CB966640.1|CB966640
EST:     TTGGGCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: TTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|66918985|gb|CX105833.1|CX105833
EST:     ACTTTTCGTTAAAGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: ACTTTTCGTTAAAGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|15855989|gb|BI808801.1|BI808801
EST:     ACTTTTCGTTAAAGAAGGCTAGCCAGCTGGTGAAAGAGATTTGCC-TCAG                         GTTGCAACTGAC-AATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: ACTTTTCGTTAAAGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|88969544|gb|CI383054.1|CI383054
EST:     CTGGTGAAAGAGATTGGCCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: CTGGTGAAAGAGATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|89186178|gb|CI048047.1|CI048047
EST:     ACTTTTCGTTAAAGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: ACTTTTCGTTAAAGAAGGCTAGCCAGCTGGTGAAAGAGATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|88262856|gb|CI364434.1|CI364434
EST:     AGCCAGCTGGTGAAAGAGATTGGCCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: AGCCAGCTGGTGAAAGAGATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|86864804|gb|CI344294.1|CI344294
EST:     AGATTGGCCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: AGATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|88275141|gb|CI395745.1|CI395745
EST:     GATTGGCCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: GATTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
EST: gi|14980927|gb|BI305605.1|BI305605
EST:     TTGGGCGTCAG                         GTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT
genomic: TTGGCCGTCAGgtacccccat ... atccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgcgcttgtgcttttgcatgtccagcagtacctgaaatttgaaatccttgcagGTTGCAACTGACAAATGCATTATGGCATTGCTTTTTCTGATTGTTTGTGGTGTGATTGCAATTATTGTTGTTAAG
                                              tccttgc  CT-rich tract
                                    aaatttgaaat  TA-rich tract