Sequence
atgc intronic sequence ATGC exonic sequenceCCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATGGACAGgtaataaaggagttgtgccccgcagaaacaaattatgacctatttctggtttctttgatttaatagtcttctttaaaagcttgaaagagcatatgtaacc...
Basic information
species | Oryza sativa |
transcript | LOC_Os06g07090.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os06g07090.1 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G017421_T02 (Zea mays), 5'ss of exon 18
CCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATGGACAGgta----ataaaggagttgtgccccgcagaaacaaattatgacctatttctggtttctttgatttaatagtcttctttaaaagcttgaaagagcatatgtaacc
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CCAGTTGCGTTTGGACCCAGCTAGCAGCAGCACTCTTCCTGCCAGTGGAAATGTGTCAGTCACACAAAGCCTCAGTGTCACTAACAACCAACATGGGCAGgtatttcacacacacacccttctcccctcttcttgaatgtggcatatcttt--tttactttttacaactgaaccaatacagtactataaagatcgtgtaaga--
upper sequence: LOC_Os06g07090.1 (Oryza sativa), 5'ss of exon 18
lower sequence: GRMZM2G030144_T02 (Zea mays), 5'ss of exon 17
CCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATGGACAGgtaataaaggagttgtgccccgcagaaacaaattatgacctatttctggtttctttgatttaatagtcttctttaaaagcttg---aaagagcatatgtaacc-------
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CCAGTTGCGTTTGGACCCAGCGAGCAGCAGCACTCTTCCTGCCAGTGGAAATGGGTCAGTTACACAAAGCCTCAGTGTCACCAACAACCAGCATGGCCAGgttattaaagccccccccccccctgaa------tgttgcatttgtttagcttgt---agccaatatagtactttaaaggtttatgtaaatggcacat-cagctttggcatMapped 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|86430463|gb|CI082886.1|CI082886EST: ATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATGGACAG AAACCCCTTGCGATGCGTATCCGGATAACTTACAAAGTGAACGGTGAGGAC
genomic: ATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATGGACAGgtaataaagg ... taccgcacagAAACCCCTTGCGATGCGTATCCGGATAACTTACAAAGTGAACGGTGAGGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCAGTTGCGTTTGGACCCCGCTAGCAGCAACACGCTTCCTGCCAGTGGAAATGATTCTGTTACACAAAGCCTCAGTGTCACAAATAACCAACATGGACAGgtaataaaggagttgtgccccgcagaaacaaattatgacctatttctggtttctttgatttaatagtcttctttaaaagcttgaaagagcatatgtaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA