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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgacttgtgcaaatggatggtaatacaaaaacctgcaatccctgaatttatttgaaacatatttcttatatcaactttctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCGGAGGCATCATCCGTTGGGGAGACGATTTGTTCACTGAGGTTCGCTTCAA

Basic information

species Oryza sativa
transcript LOC_Os04g53760.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g53760.2 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G114861_T01 (Zea mays), 3'ss of exon 15
gtgagtgacttgtgcaaatggatggtaatacaaaaacctgcaatccctgaatttatttgaaacatatttcttatatcaactttctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCGGAGGCATCATCCGTTGGGGAGACGATTTGTTCACTGAGGTTCGCTTCAA
|| |||||   |||||      ||   || || |    |  |||     | |  |||| | ||| || ||   ||| | |||    ||||||||||||||||||||||| || ||| | || ||||||||||||||||| ||||||||||| |||||||| |||||||| || ||  ||||||| |||||||
gttagtgatccgtgca------tgtctatgcagag---ttgaatgttgtagtccattttagaca-atctcagctat-atcttcactttgcagCCTTGCCTTGGAGGTGACTCGAAAGCTCTCATGTTTGTCAACATTTCACCGGAGGCATCCTCCGTTGGTGAGACGATATGCTCGTTGAGGTTTGCTTCAA

upper sequence: LOC_Os04g53760.2 (Oryza sativa), 3'ss of exon 16
lower sequence: Vv00s0532g00020.t01 (Vitis vinifera), 3'ss of exon 16
-gtgagtgacttgtgcaaatggatggtaatacaaaaacctgcaatccctgaatttattt-gaaacat-----atttcttatatcaac----tttctattg-cagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCGGAGGCATCATCCGTTGGGGAGACGATTTGTTCACTGAGGTTCGCTTCAA
 |  |||  || || | | |  |||| |    | ||   ||  ||  || |  |  ||| | | |||     |||||| | |||       ||| |||   ||||||||| | || || |||||||| || ||||||||||||||||| ||||| ||  |||| || ||||| ||| |  | || || || ||||| ||| | |
agcaagtttct-gttctattaaatggca---tagaagtttgtcatatcttagctggttttgcatcattaagaatttctgaaatctctgttatttgtatgatcagCCTTGCTTAGGTGGGGATTCCAAGACCCTGATGTTTGTCAACATCTCTCCCGACCCATCTTCAGTTGGTGAGTCCCTATGCTCTCTTAGGTTTGCTGCCA
















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|86878216|gb|CI319532.1|CI319532
EST:     GAGACGATCATGTGCCCTTCA-GAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|88980749|gb|CI022445.1|CI022445
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|86855868|gb|CI271087.1|CI271087
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|88263935|gb|CI367709.1|CI367709
EST:     CATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: CATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|86434242|gb|CI094585.1|CI094585
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|29637660|gb|CB642669.1|CB642669
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|89184723|gb|CI007148.1|CI007148
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|86482430|gb|CI125063.1|CI125063
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|88985287|gb|CI006941.1|CI006941
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|86250879|gb|CI007742.1|CI007742
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|87022822|gb|CI269758.1|CI269758
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|88987873|gb|CI017960.1|CI017960
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|86881787|gb|CI324087.1|CI324087
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTCCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|88980972|gb|CI021099.1|CI021099
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|427624|gb|D23757.1|D23757
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|87021429|gb|CI274036.1|CI274036
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|86852795|gb|CI323104.1|CI323104
EST:     AAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: AAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
EST: gi|8859914|gb|AU097232.1|AU097232
EST:     AGACGATCATGTGCCCTTCAGGAACTCAAAACTTANCATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACCGCTGATGTTTGTCAACATTTCTCC
genomic: AGACGATCATGTGCCCTTCAGGAACTCAAAACTTA-CATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAA-CGCTGATGTTTGTCAACATTTCTCC
EST: gi|58657773|gb|CK046453.1|CK046453
EST:     GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAG                         CCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG
genomic: GAGACGATCATGTGCCCTTCAGGAACTCAAAACTTACATACCTTTTGCAGgtgagtgact ... tctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcaatccctgaatttatttgaaacatatttcttatatcaactttctattgcagCCTTGCCTTGGAGGTGATTCCAAAACGCTGATGTTTGTCAACATTTCTCCGGAGGCATCATCCGTTGGGGAGACGATTTGTTCACTGAGGTTCGCTTCAA
                                          ctttctatt  CT-rich tract
            aatttatttgaaacat  TA-rich tract