Sequence
atgc intronic sequence ATGC exonic sequence...tgtttgtcaattgcattatgatctgatgccctatttagattttagagaatgatagggtccttttttttccctatatttgggtatatgaaatcgatggcagCCCAGAAGATGTCATCAAAAGGTTCGAGCAAAGAAGCCATGCTGTGGACAGCAGAG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g43150.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g43150.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G004040_T01 (Zea mays), 3'ss of exon 1
-tgtttgtcaattgcattatgatctgatgccctatttagattttagagaatgatagggtcctttttt-ttccctatatttgggtatatgaaatcgatggcagCCCAGAAGATGTCATCAAAAGGTTCGAGCAAAGAAGCCATGCTGTGGACAGCAGAG--------------------------------------------
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gactttgtactgaccattgc-atcaaatcttcgaattagaaactgaagaatggtttcacctgtttgaatttcctgttttggtgtgcaccaaaaatatg-cagCCCTGAAGATGTCATTAAAAGGTTTGAGGAGCGAAGCCATGCTGTGGATAGCAGGGGGGCTGCAGAGTACCTGCGGGCACTTATTCTCACTAACACTATA
upper sequence: LOC_Os01g43150.3 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G156069_T01 (Zea mays), 3'ss of exon 1
tgt-ttgtcaattgcattatgatctgatgccctatttagattttagagaatgatagggtccttttttt----tccctatatttgggtata-tgaaatcgatggcagCCCAGAAGATGTCATCAAAAGGTTCGAGCAAAGAAGCCATGCTGTGGACAGCAGAG--------------------------------------------
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tgtattgaccattgcatca------aatcttcgcattagaaactaaagattggtatgttcacctatctgaatttcctgttttggtgtgcactgaaaataatggcagCCCTGAAGAGGTTATTAAAAGGTTTGAGCAGCGAAGCCATGCTGTGGATAGCAAGGGGGCTGCAGAGTACCTGCGGGCACTTATTCTCACTAACACTATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaatgatagggtccttttttttccctatatttgggtatatgaaatcgatggcagCCCAGAAGATGTCATCAAAAGGTTCGAGCAAAGAAGCCATGCTGTGGACAGCAGAG
tatatgaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttgtcaattgcattatgatctgatgccctatttagattttagagaatgatagggtccttttttttccctatatttgggtatatgaaatcgatggcagCCCAGAAGATGTCATCAAAAGGTTCGAGCAAAGAAGCCATGCTGTGGACAGCAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG