Sequence
atgc intronic sequence ATGC exonic sequenceGAAGTTAAAAGGACTGTCCCGAGGGAGGAAATGTCGTCGAAAGATGGTCCTAAAACGAGAAAAATCTTTGTTGGTGGTATTCCACCATCTCTTACTGAAGgtagccagcagaactaagttgtttcctttttacaagcaaaaatatatttgtattctagaaaacaatggcttgaatactctaaataatgttatgtcttgataaatatgattgtcatgaaacttccag
Basic information
species | Oryza sativa |
transcript | LOC_Os06g37000.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g37000.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G104481_T01 (Zea mays), 5'ss of exon 4
---GAAGTTAAAAGGACTGTCCCGAGGGAGGAAATGTCGTCGAAAGATGGTCCTAAAACGAGAAAAATCTTTGTTGGTGGTATTCCACCATCTCTTACTGAAGgtagccagcagaactaagttgtttcctttttacaagcaaaaatatatttgtatt----ctagaaaacaatggcttgaatactctaa-----ataat-gttatgtcttgataaatatgattgtcatgaaacttccag--------------------
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GTTGAAGTCAAAAGGACTGTTCCAAAAGAGC---TGTCGTCGAAAGATGGCCCTAAGACAAAAAAGATCTTTGTGGGTGGTATCCCACCATCTCTTACTGAAGgta-caagcgttgctgaaacctcttttgttt-caagcaaaaaatattctgcattgaaattgcaaattataaacttcaatgagccaccagctataattgttgggccttg-caaacattcatttca-aatgctagcaatattaatatgaaccttccag
upper sequence: LOC_Os06g37000.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G064518_T01 (Zea mays), 5'ss of exon 4
GAAGTTAAAAGGACTGTCCCGAGGGAGGAAATGTCGTCGAAAGATGGTCCTAAAACGAGAAAAATCTTTGTTGGTGGTATTCCACCATCTCTTACTGAAGgtagccagcagaactaagttgtttcctttttacaagcaaaa-atatat-----ttgtatt---ctagaaa-acaatggcttgaat------------actctaaataatgttatgtcttg-ataaatatgattgtcatgaaacttccag
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GAAGTCAAAAGGACTGTTCCAAAAGAGGAAATGTCATCGAAAGACGGTCCTAAGACAAAAAAGATCTTTGTGGGTGGTATTCCACCATCTCTTACCGAAGgta-caagcgacactgaaacattttttgtttgtaagcaaaagatatggcaacattgtattgaactggcaatataataactttgatcagccaccagctaccttgaaaacatttgtttcaaatgcaaacatgattaatatgaaccttgcagMapped 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|163928021|gb|EG709469.1|EG709469EST: TAAAACGAGAAAAATCTTTGTTGGTGGTATTCCACCATCTCTTACTGAAG ATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGA
genomic: TAAAACGAGAAAAATCTTTGTTGGTGGTATTCCACCATCTCTTACTGAAGgtagccagca ... aaacttccagATAAATTGAAGGAGCATTTCTCTTCATATGGGAAGGTAGTTGAGCATCAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGTTAAAAGGACTGTCCCGAGGGAGGAAATGTCGTCGAAAGATGGTCCTAAAACGAGAAAAATCTTTGTTGGTGGTATTCCACCATCTCTTACTGAAGgtagccagcagaactaagttgtttcctttttacaagcaaaaatatatttgtattctagaaaacaatggcttgaatactctaaataatgttatgtcttgataaatatgattgtcatgaaacttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG