Sequence
atgc intronic sequence ATGC exonic sequenceATGGACTCTTGTCTAAGTCCAACGAAAGGATATTAGTCCTTGCTGCAACGAACAGGCCCTTTGACCTTGATGATGCGGTGATAAGGAGATTTGAGCACAGgtatgtttcgtttatgtgtatctaaacttctatttgattaaattcagcttctctagatgagtttttttatgagtcatttgtgttaaatag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g43480.2 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g43480.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA10G37380.1 (Glycine max), 5'ss of exon 10
ATGGACTCTTGTCTAAGTCCAACGAAAGGATATTAGTCCTTGCTGCAACGAACAGGCCCTTTGACCTTGATGATGCGGTGATAAGGAGATTTGAGCACAGgtatg--------tttcgtttatgtgtatctaaacttctatttgattaaattcagcttctc--tagatgagtttt-tttatgagt-catttgtgttaaatag
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ATGGAATATTGACAAAACCTGGTGAGCGAATTCTGGTTCTTGCTGCAACCAACAGGCCATTTGACCTTGATGAAGCAATTATAAGACGGTTTGAGCGCAGgtaagaccacacctttgtcttatggttggcatgatcttctgttgattacttgtgtctgttcagcagctatattttctttattagaacaatcacaatcatt--
upper sequence: LOC_Os01g43480.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv02s0025g00650.t01 (Vitis vinifera), 5'ss of exon 12
ATGGACTCTTGTCTAAGTCCAACGAAAGGATATTAGTCCTTGCTGCAACGAACAGGCCCTTTGACCTTGATGATGCGGTGATAAGGAGATTTGAGCACAGgtatgttt-cgtttatgtgtatctaaacttctatttgattaaa--ttcagcttctctagatgagttttttta--tgagtcatttgtgttaaatag-----
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ATGGACTCTTGACAAAACCGGGTGAGCGGATTCTTGTTCTTGCTGCAACTAACAGGCCATTTGACCTTGATGAAGCCATAATCAGACGCTTTGAGAGGAGgtaactctgcatttccaagaacattccacacaccttaatggaagtttgagttcacctttccatgttttcttggttgaggaggagaagccaaaattattat
upper sequence: LOC_Os01g43480.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv16s0050g01830.t01 (Vitis vinifera), 5'ss of exon 11
ATGGACTCTTGTCTAAGTCCAACGAAAGGATATTAGTCCTTGCTGCAACGAACAGGCCCTTTGACCTTGATGATGCGGTGATAAGGAGATTTGAGCACAGgtatgttt-cgt-ttatgtgtatctaaacttctatttgattaaatt-cagcttct---ctaga--tgagtttttttatgagtcatttgtgttaaatag-------------------------------------------------------
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ATGGACTACTGACAAAAGCTGGTGAACGAGTCCTCGTTCTTGCTGCAACCAACAGGCCATTTGACCTTGATGAGGCGATTATCAGGCGGTTTGAGCACAGgtagatttgcatattgtgtcacactcggcatcattttcatcgttttaccgcatttaaactaaagccgtgttgtatggagaaggatatattgaagatagatgaatgtgtcaccatgcttcgagtaggcaaactaatggtatctgtgatgaacag
upper sequence: LOC_Os01g43480.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv16s0050g01840.t01 (Vitis vinifera), 5'ss of exon 12
ATGGACTCTTGTCTAAGTCCAACGAAAGGATATTAGTCCTTGCTGCAACGAACAGGCCCTTTGACCTTGATGATGCGGTGATAAGGAGATTTGAGCACAGgtatgtttcgtttatgtgt---atctaa----acttctatttgattaaattcagcttctctagatgagtttttttatgagtcatttgtgttaaatag----------------------------------------
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ATGGACTACTGACAAAAGCTGGTGAACGAGTCCTCGTTCTTGCTGCAACCAACAGGCCATTTGACCTTGATGAGGCGATTATCAGGCGGTTTGACCACAGgtagatttgcatattgtgttacactcagcatcattttcatcgttttactctgaagctatggagaaggatatattaaagatagatgaatgtgtcaccatgctttgagtaggcaaactaatggtatctgtgatgaacagMapped 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|2796913|gb|AA750207.1|AA750207EST: AACAGGCCCTTTGACCTTGATGATGCGGTGATAAGGAGATTTGAGCACAG AATCATGGTCGGCCTCCCAACGTTGGAGAGTAGAGAGCTGATTCTGAAGAC
genomic: AACAGGCCCTTTGACCTTGATGATGCGGTGATAAGGAGATTTGAGCACAGgtatgtttcg ... tgttaaatagAATCATGGTCGGCCTCCCAACGTTGGAGAGTAGAGAGCTGATTCTGAAGAC
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGGACTCTTGTCTAAGTCCAACGAAAGGATATTAGTCCTTGCTGCAACGAACAGGCCCTTTGACCTTGATGATGCGGTGATAAGGAGATTTGAGCACAGgtatgtttcgtttatgtgtatctaaacttctatttgattaaattcagcttctctagatgagtttttttatgagtcatttgtgttaaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT