Sequence
atgc intronic sequence ATGC exonic sequenceTGAAGGTGGTGCTACTTGGGCTTTTGATGTTGGCAGTCAATCTATGACATGCCCAATCATTGTTGAAGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatcattctgttattgctgtctttgtagaactagtattttgtgattcttgatgcacaaacactactttccgtttgttgacggtggtgcctattcag
Basic information
species | Oryza sativa |
transcript | LOC_Os12g06330.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G031656_T02 (Zea mays), 5'ss of exon 9
TGAAGGTGGTGCTACTTGGGCTTTTGATGTTGGCAGTCAATCTATGACATGCCCAATCATTGTTGAAGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatcattctgttattgct-gtctttgtagaactagtattttgtgattcttgatgcacaaacactactttccgtttgttgacggtggtgcctattcag
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CGAAGGTGGTGCGACTTGGGCCTTTGATGTTGGTAGTCAATCTATGACGTGTCCAATCATTGTTGAGGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatgattctgttattgcttgtcctttcaa---------ctcattattgtcaatgtatgcata-----------ttgctaatggtgttgcctgtatag
upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G069408_T01 (Zea mays), 5'ss of exon 8
TGAAGGTGGTGCTACTTGGGCTTTTGATGTTGGCAGTCAATCTATGACATGCCCAATCATTGTTGAAGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatcattctgttattgctgtctttgtagaactagtattttgtgattcttgatgcacaaacactactttccgtttgttgacggtggtgcctattcag
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CGAAGGTGGTGCAACTTGGGCCTTGGATGTTGGTAGTCGATCTATGACGTGCCCAATCATTGTCGAGGATCTCGAGCGGCCTCGTCAGATGCTTGTGGAGgtaaatgattctgctattgctggttctttcaac------tctttttattgccaacgcatgcatatttct-----------gatggtgttgcctctgtag
upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA11G18290.1 (Glycine max), 5'ss of exon 9
TGAAGGTGGTGCTACTTGGGCTTTTGATGTTGGCAGTCAATCTATGACATGCCCAATCATTGTTGAAGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatcattctgtt--attgctgtctttgtagaactagtattttgtgattcttgatgcacaaacactactttccgtttgttgacggtggtgcctattcag
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TGAGGGAGGGGCTACATGGGCATATGAGGTTGGCTCGCAATCAATGGTTTGTCCAATCATTGTTGAAGATCTCAATCCTCCTCGTCAGATGCTAGTAGAGgtaatgagtgatgcttcataattattttta-aatacacttatcccttgaatgtatttgtattggctctaatc-cattgtgtttacttggttattcttgcagMapped 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|86481937|gb|CI124570.1|CI124570EST: GCCCAATCATTGTTGAAGATCTTGATCGGCCTCGTCAGATGCCTGTGGAG ATGCTCTGTGAGGATAGAGGGATCTTCTTGGAGATAGCTGACTTCATCAAA
genomic: GCCCAATCATTGTTGAAGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatcatt ... gcctattcagATGCTCTGTGAGGATAGAGGGATCTTCTTGGAGATAGCTGACTTCATCAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAAGGTGGTGCTACTTGGGCTTTTGATGTTGGCAGTCAATCTATGACATGCCCAATCATTGTTGAAGATCTTGATCGGCCTCGTCAGATGCTTGTGGAGgtaaatcattctgttattgctgtctttgtagaactagtattttgtgattcttgatgcacaaacactactttccgtttgttgacggtggtgcctattcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG