Sequence
atgc intronic sequence ATGC exonic sequencegttacatttctgacatgtgttaagaaagaattgttgttattaatggagctgttgatatcctgctgatacttttactttgtcaagGATTATGCACTGGAGTCAGATAACAATACCATAAAATCTTCTGTACATTCAATAGCCAGGACAATAGCTGGAAATCTAGCCTATGCTAATTGCAAG
Basic information
species | Oryza sativa |
transcript | LOC_Os03g01240.1 |
intron # | 25 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g01240.1 (Oryza sativa), 3'ss of exon 25
lower sequence: GRMZM2G435765_T01 (Zea mays), 3'ss of exon 11
gttacatttctgacatgtgttaagaaagaattgttgttattaatggagctgttgatatcctgctgatacttttactttgtcaagGATTATGCACTGGAGTCAGATAACAATACCATAAAATCTTCTGTACATTCAATAGCCAGGACAATAGCTGGAAATCTAGCCTATGCTAATTGCAAG
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gttactttcttaccttctttggtttaaga--------tgttagtg----tgatgata--ctgttgacaca--tatttcttgaagGATTATGCACTGGAGTCTGATAACAATACGATAACTCGATCCGCACATTTGATGGTTGGAACATTAGCCGGAAGTCTGGCACATGTTACTTGCAAG
upper sequence: LOC_Os03g01240.1 (Oryza sativa), 3'ss of exon 25
lower sequence: GRMZM2G179406_T01 (Zea mays), 3'ss of exon 10
---gttacatttctga----catgtgttaagaaagaattgttgttattaatggagct--gttgatatcctgctgatactttt-------actttgtcaagGATTATGCACTGGAGTCAGATAACAATACCATAAAATCTTCTGTACATTCAATAGCCAGGACAATAGCTGGAAATCTAGCCTATGCTAATTGCAAG
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caagctgaactacaaaagaacttattctgaaggttactttcttatcttctttggtttaagatgttagtgtgatgatactgttgacacatatttcttgaagGATTATGCACTGGAGTCTGATAACAATACGATAACTCGATCCGCACATTTGATGGTTGGAACATTAGCCGGAAGTCTGGCACATGTTACTTGCAAG
upper sequence: LOC_Os03g01240.1 (Oryza sativa), 3'ss of exon 25
lower sequence: AC196144.3_FGT002 (Zea mays), 3'ss of exon 8
gttacatttctgacatgtgttaagaaagaattgttgttattaatggagctgttgatatcctgctgatacttttactttgtcaagGATTATGCACTGGAGTCAGATAACAATACCATAAAATCTTCTGTACATTCAATAGCCAGGACAATAGCTGGAAATCTAGCCTATGCTAATTGCAAG
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gttactttcttaccttctttggtttaaga--------tgttagtg----tgatgata--ctgttgacaca--tatttcttgaagGATTATGCACTAGAGTCTGATAACAATACGATAACTCGATCCGCACATTTGATGGTTAGAACATTAGCCGGAAGTCTGGCACATGTTACTTGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgttgttattaatggagctgttgatatcctgctgatacttttactttgtcaagGATTATGCACTGGAGTCAGATAACAATACCATAAAATCTTCTGTACATTCAATAGCCAGGACAATAGCTGGAAATCTAGCCTATGCTAATTGCAAG
cttttacttt CT-rich tract
tgttattaat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttacatttctgacatgtgttaagaaagaattgttgttattaatggagctgttgatatcctgctgatacttttactttgtcaagGATTATGCACTGGAGTCAGATAACAATACCATAAAATCTTCTGTACATTCAATAGCCAGGACAATAGCTGGAAATCTAGCCTATGCTAATTGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA