Sequence
atgc intronic sequence ATGC exonic sequenceTGAACTTCTTTTATGTGCTCCCGATTGCATTTGTTCAGTCCCTTGCAAATATTGAAGGGATTGAGAAGGCAGCTCCATTTCTGAAGCCTTTGATTGAAATgtacgtgcatttatctctttcttctgcaataattattatcagttgttcctcaattttttttttcagttgaaagcttaccacatactgcttttctagtatt...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g35050.3 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g35050.3 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G064189_T01 (Zea mays), 5'ss of exon 1
TGAACTTCTTTTATGTGCTCCCGATTGCATTTGTTCAGTCCCTTGCAAATATTGAAGGGATTGAGAAGGCAGCTCCATTTCTGAAGCCTTTGATTGAAATgtacgtgcattt----at-ctctttcttctgcaataattattatcagttgttcctcaattttttttttcagttgaaagcttaccacatactgcttttctagtatt--
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TGAACTTCTTTTATGTGTTCCCAATAGCATTTGTTCAGTCTCTTGCAAATCTTGAAGGGATTGAGAAGGCAGCGCCGTTTCTGAAGCCTCTGATTGAAGAgtacgtctactttaacatgctataccttctgcacaatttattttcattt------cagttctaccgat-agtagttatattgttggtttaaacttcccttatgttgg
upper sequence: LOC_Os01g35050.3 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G021194_T01 (Zea mays), 5'ss of exon 8
TGAACTTCTTTTATGTGCTCCCGATTGCATTTGTTCAGTCCCTTGCAAATATTGAAGGGATTGAGAAGGCAGCTCCATTTCTGAAGCCTTTGATTGAAATgtacgtgcattt----at-ctctttcttctgcaataattattatcagttgttcctcaattttttttttcagttgaaagcttaccacatactgcttttctagtatt
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TGAACTTCTTTTATGTGTTCCCAATAGCATTTGTTCAGTCTCTTGCAAATCTTGAAGGGATTGAGAAGGCAGCGCCGTTTCTGAAGCCTCTGATTGAAGAgtacgtctactttaacatgctataccttctgcacaatttattttcatttcagttctaccgtagtagttatattgttggtttaaacttcccttatgttgga-----
upper sequence: LOC_Os01g35050.3 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv12s0059g01090.t01 (Vitis vinifera), 5'ss of exon 7
TGAACTTCTTTTATGTGCTCCCGATTGCATTTGTTCAGTCCCTTGCAAATATTGAAGGGATTGAGAAGGCAGCTCCATTTCTGAAGCCTTTGATTGAAATgtacgtgcatttatctctttcttctgcaataattattatcagttgttcctcaattttttttttcagttgaaagcttaccacatactgcttttctagtatt-
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TTACCTTCTTTTTCATGATTCCCATTGCACTGGTACAGTCCCTTGCAAACATTGAGGGAATTGAGAAGGCAGTACCTTTTCTTAAGCCTTTAATTGAGACgtgagtttgctagtcttctttactacttgttgctatctcagaatatttattgtcatctgttctcaaatttttgat-agtatctttttctttgtgtatatatMapped 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|66923753|gb|CX110601.1|CX110601EST: ATTGAAGGGATTGAGAAGGCAGCTCCATTTCTGAAGCCTTTGATTGAAAT GCGTACTATTAAATCATTCATCCAAGGATTTCTGCCAGGAATTGCTCTGAA
genomic: ATTGAAGGGATTGAGAAGGCAGCTCCATTTCTGAAGCCTTTGATTGAAATgtacgtgcat ... tattgcccagGCGTACTATTAAATCATTCATCCAAGGATTTCTGCCAGGAATTGCTCTGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGAACTTCTTTTATGTGCTCCCGATTGCATTTGTTCAGTCCCTTGCAAATATTGAAGGGATTGAGAAGGCAGCTCCATTTCTGAAGCCTTTGATTGAAATgtacgtgcatttatctctttcttctgcaataattattatcagttgttcctcaattttttttttcagttgaaagcttaccacatactgcttttctagtatt
- - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC