Sequence
atgc intronic sequence ATGC exonic sequenceCTGAAGAAGGGCCAACTCTCCAGGTGGCCATCTCTTGTGCAGCAAATATCTATTTCATTTATCAGAGGCTGAAAAGTGGATGGCGAACATTCTTTTATGGgtatgttttcttcctctttgcagtttttttgtgtgttttagcctttagctaatggtatatccgagtaatctatggttagttccatacactatagtgttta...
Basic information
species | Oryza sativa |
transcript | LOC_Os03g15033.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g15033.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G013814_T01 (Zea mays), 5'ss of exon 4
CTGAAGAAGGGCCAACTCTCCAGGTGGCCATCTCTTGTGCAGCAAATATCTATTTCATTTATCAGAGGCTGAAAAGTGGATGGCGAACATTCTTTTATGGgtatgttttcttcctctttgcagtttttttgtgtgttttagcctttagct--aatggtatatccgagtaatctatggttagttccatacactatagtgttta--
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CCGAAGAAGGGCCAACCCTCCAGGTGGCCATCTCTTGTGCAGCAAATATCTATTTCATTTATCAGAGGGTCAAAAGTGGATGGCGAGCATTCTTTTATGGgtatgctttcttc-tcattgtaggattttagtttatta-agtatacatctgcattggcctatgttt-tgctcttagtacaattgcatttgttttca-attcatt
upper sequence: LOC_Os03g15033.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G050825_T01 (Zea mays), 5'ss of exon 4
CTGAAGAAGGGCCAACTCTCCAGGTGGCCATCTCTTGTGCAGCAAATATCTATTTCATTTATCAGAGGCTGAAAAGTGGATGGCGAACATTCTTTTATGGgtatgttttcttcctctttgcagtttttttgtgtgttttagcctttag---ctaatggtatatccg-agtaatctatggttagttccatacactatag-tgttta
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CTGAAGAAGGGCCAACCCTCCAGGTGGCCATCTCTTGTGCAGCAAATATCTATTTCATTTATCAGAGGGTCAAAAGTGGATGGCGAGCATTCTTTTATGGgtatgttttattcttattattggatttta-----gttttaacttttaaggattaaggatatatctgcactggcctatgattagttgctcttagaacgactgcattMapped 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|66922895|gb|CX109743.1|CX109743EST: TATTTCATTTATCAGAGGCTGAAAAGTGGATGGCGAACATTCTTTTATGG GTTCGGATCCTTCTTTGCTTCCTGGTTCCTTGCCACATTCTTGATGGTTTC
genomic: TATTTCATTTATCAGAGGCTGAAAAGTGGATGGCGAACATTCTTTTATGGgtatgttttc ... gatttttcagGTTCGGATCCTTCTTTGCTTCCTGGTTCCTTGCCACATTCTTGATGGTTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTGAAGAAGGGCCAACTCTCCAGGTGGCCATCTCTTGTGCAGCAAATATCTATTTCATTTATCAGAGGCTGAAAAGTGGATGGCGAACATTCTTTTATGGgtatgttttcttcctctttgcagtttttttgtgtgttttagcctttagctaatggtatatccgagtaatctatggttagttccatacactatagtgttta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcctc