Sequence
atgc intronic sequence ATGC exonic sequenceATATGCAAGTGAAAATAAGCGAGTTGATCTTTTTGATGGCCCAAGTGTTGAAGATGGCTTTGGTGAAGAAAATGTCCTGTTAGCATCAAgtaagtagcaactctagggcccttttaagtgcatatggaggtggtctattttttctcaggtgaaatgataagaatattctggcggatatgccatcactagcatgaatatatgcacctctttagatttaatggtcaattatttcttttgtag
Basic information
species | Oryza sativa |
transcript | LOC_Os06g50120.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g50120.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G065105_T04 (Zea mays), 5'ss of exon 5
ATATGCAAGTGAAAATAAGCGAGTTGATCTTTTTGATGGCCCAAGTGTTGAAGATGGCTTTGGTGAAGAAAATGTCCTGTTAGCATCAAgtaagtagcaactctagggcccttttaagtgc----atatggaggtggtctattttttctcaggtgaaatgataagaatattct-ggcggatatgccatcactagcatgaatatatgcacctctttagatttaatggtcaattatttcttttgtag------------------------------------
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GCAGGCAAGTGAAAACAAGAGAATCGATCTTTTTGATGGGCCAAGTGCTGAAGATGGCTTTGGTGAAGAAAATGTCCTGTTAGCATCAAgtaagtggcgacatcacatcccctacaagtttgctaatgtgaatatgtgatagctctttcaggtttgaaagctaggaatatgttaggcaaacttattttctttta-attgttatgtttatctattgaaacctttgcaagaaacaagcctcttatacagctcttcagataactgagcagttcctttttcttag
upper sequence: LOC_Os06g50120.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G065105_T02 (Zea mays), 5'ss of exon 5
ATATGCAAGTGAAAATAAGCGAGTTGATCTTTTTGATGGCCCAAGTGTTGAAGATGGCTTTGGTGAAGAAAATGTCCTGTTAGCATCAAgtaagtagcaactctagggcccttttaagtgc----atatggaggtggtctattttttctcaggtgaaatgataagaatattct-ggcggatatgccatcactagcatgaatatatgcacctctttagatttaatggtcaattatttcttttgtag------------------------------------
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----GCAAGTGAAAACAAGAGAATCGATCTTTTTGATGGGCCAAGTGCTGAAGATGGCTTTGGTGAAGAAAATGTCCTGTTAGCATCAAgtaagtggcgacatcacatcccctacaagtttgctaatgtgaatatgtgatagctctttcaggtttgaaagctaggaatatgttaggcaaacttattttctttta-attgttatgtttatctattgaaacctttgcaagaaacaagcctcttatacagctcttcagataactgagcagttcctttttcttagMapped 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|44679310|gb|CR292744.1|CR292744EST: CCCAAGTGTTGAAGATGGCTTTGGTGAAGAAAATGTCCTGTTAGCATCAA ATATGACAAACCAACAGTTAATGGATCAAGGAAACCAACTAATGGATGAGA
genomic: CCCAAGTGTTGAAGATGGCTTTGGTGAAGAAAATGTCCTGTTAGCATCAAgtaagtagca ... tcttttgtagATATGACAAACCAACAGTTAATGGATCAAGGAAACCAACTAATGGATGAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATGCAAGTGAAAATAAGCGAGTTGATCTTTTTGATGGCCCAAGTGTTGAAGATGGCTTTGGTGAAGAAAATGTCCTGTTAGCATCAAgtaagtagcaactctagggcccttttaagtgcatatggaggtggtctattttttctcaggtgaaatgataagaatattctggcggatatgccatcactagcatgaatatatgcacctctttagatttaatggtcaattatttcttttgtag
- - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA