Sequence
atgc intronic sequence ATGC exonic sequenceTGATGCTGCTGTTGTCATGCTTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGTTGGAGAACTGgtacgacctaagaaagaacatgattgtttactaaagcattgttataaagctgtgacatcatattctcatggcttatcttctcttagacgttcgctactag...
Basic information
species | Oryza sativa |
transcript | LOC_Os07g39010.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os07g39010.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G060762_T01 (Zea mays), 5'ss of exon 3
TGATGCTGCTGTTGTCATGCTTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGTTGGAGAACTGgtacgacctaagaaagaacatgatt-gtttactaaagcattgttataaagctgtgacatcatatt--ctcatggcttatcttctcttag--acgttcgctactag----------------------------------------------------------------
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CGATGCTGCTATTGTCATGCTTTCTGGACAATTGGCGGATGGCTTCACAACAATCTTTGTTGGGGAATTGgtatgcgcctagaaataacatgatttatttattagaa-gttgcaataaa---ataacatttaattgattctccttttagccacaacaagctagattcatttttaacatttactgtgcatgattctgggggtagatatatgaagttatgatcataccatttctgttccag
upper sequence: LOC_Os07g39010.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G121458_T02 (Zea mays), 5'ss of exon 7
TGATGCTGCTGTTGTCATGCTTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGTTGGAGAACTGgtacgacctaagaaagaacatgattg-tttactaaagcattgttataaagctgtg-acatcatattctc------------atggcttatcttctcttagacgttcgctactag-----------------------------------------------------
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TGATGCCGCTATTGTGATGCTTTCTGGACAATTGGCGGATGGCTTCACAACAATCTTTGTTGGGGAATTGgtatgagccaggaaatagcttgattaatttattagaat-ttgcaataaaataatatgtaatttattctccttttgatcacaataagctaattcatcttag-cgtttactgtgtatatgattctgggggtagatatatgaagttatgaacatgcggtttctgtttcag
upper sequence: LOC_Os07g39010.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G121458_T03 (Zea mays), 5'ss of exon 3
TGATGCTGCTGTTGTCATGCTTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGTTGGAGAACTGgtacgacctaagaaagaacatgattg-tttactaaagcattgttataaagctgtgacatcatattctcatggcttatcttctcttagacgttcgctactag
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TGATGCCGCTATTGTGATGCTTTCTGGACAATTGGCGGATGGCTTCACAACAATctttgttggggaattggtatgagccaggaaatagcttgattaatttattagaat-ttgcaataaa--------ataatat----gtaatttattctccttttga---tcacaataa-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|29655796|gb|CB652071.1|CB652071EST: TTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGGTGGAGAACTG GAGGATCCATTTTAGTAGCAATTTCCTTCTCATCTGTTTTTGGTAGCTGTT
genomic: TTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGTTGGAGAACTGgtacgaccta ... tggcatgcagGAGGATCCATTTTAGTAGCAATTTCCTTCTCATCTGTTTTTGGTAGCTGTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGATGCTGCTGTTGTCATGCTTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGTTGGAGAACTGgtacgacctaagaaagaacatgattgtttactaaagcattgttataaagctgtgacatcatattctcatggcttatcttctcttagacgttcgctactag
- - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaagaa