Sequence
atgc intronic sequence ATGC exonic sequenceACTGAAAGGCGATTGGCTCAGAACAGAGAAGCTGCAAGAAAGAGCAGGCTGAGGAAAAAGgtttgaaacaaaatcatagcaaagttaagttttttttataaggaaaaagaaactatgtttgacaaagaatttacacatatgttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os05g37170.6 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os05g37170.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G000842_T02 (Zea mays), 5'ss of exon 7
ACTGAAAGGCGATTGGCTCAGAACAGAGAAGCTGCAAGAAAGAGCAGGCTGAGGAAAAAGgtttgaaacaaa-atcatagcaaa-gttaagttttttttataaggaaaaagaaactatgtttgacaaagaatttacacatatgttgcag
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ACCGAGAGGCGATTGGCCCAGAACAGAGAAGCTGCGAGGAAGAGCAGGCTGAGAAAAAAGgtgcgaagcatatagtagagaaaacgcttagatcaaccggtaccacacatctaacgaagtc-gatataaaaactgttcaacttcag---
upper sequence: LOC_Os05g37170.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA12G30990.1 (Glycine max), 5'ss of exon 7
ACTGAAAGGCGATTGGCTCAGAACAGAGAAGCTGCAAGAAAGAGCAGGCTGAGGAAAAAGgtttgaaacaaaatcatag-----caaagttaagttttttttataaggaaaaagaaactatgtttgacaaagaatttacacatatgttgcag-------------------------------------
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ACATTGAGACGTTTGGCTCAAAACAGAGAGGCTGCAAGGAAAAGCCGTCTGAGGAAAAAGgtgagtcctacatatattgttgtacaaattcaactacttgttgagaaataacacttacattgttgcagaaagtggaaactcaaaaggagctttaaatttcactgcattttgtttctgtgtatggaatagMapped 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|33655991|gb|CF278605.1|CF278605EST: GATTGGCTCAGAACAGAGAAGCTGCAAGAAAGAGCAGGCTGAGGAAAAAG GCTTATGTGCAGCAACTTGAGACTAGCCGCATAAGGCTTCAGCAAATCGAG
genomic: GATTGGCTCAGAACAGAGAAGCTGCAAGAAAGAGCAGGCTGAGGAAAAAGgtttgaaaca ... tatgttgcagGCTTATGTGCAGCAACTTGAGACTAGCCGCATAAGGCTTCAGCAAATCGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTGAAAGGCGATTGGCTCAGAACAGAGAAGCTGCAAGAAAGAGCAGGCTGAGGAAAAAGgtttgaaacaaaatcatagcaaagttaagttttttttataaggaaaaagaaactatgtttgacaaagaatttacacatatgttgcag
- - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - GAGCAG