Sequence
atgc intronic sequence ATGC exonic sequenceGTATTCCATTTGGATCAGTAAATTTATTGTATGGAGTCGATGAAAATGAAAGCAAGgcaagcttattttgtcctacgttttgttgtttatagagcttgcaatcaggaacaggcccagagtttggactcatgttaattatggtcgatatggagatta...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g56670.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g56670.3 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G173868_T02 (Zea mays), 5'ss of exon 6
GTATTCCATTTGGATCAGTAAATTTATTGTATGGAGTCGATGAAAATGAAAGCAAGgcaagcttattttgtcctacgttttgttgtttatagagcttg-caatcaggaacaggcccagagtttggactcatgttaattatggtcga-tatggagatta
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GTATTCCATTTGGATCTGTTAATTTATTGTACGGAGTCGATGAAAATGAAAGCAAGgcaaccttctttcttcctccctattgctagctgtagagcttggcaaacagaaatag-ttctgcatacctattaatgtttttgaaccttgaatctgaatatt-
upper sequence: LOC_Os01g56670.3 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv05s0020g04650.t01 (Vitis vinifera), 5'ss of exon 6
GTATTCCATTTGGATCAGTAAATTTATTGTATGGAGTCGATGAAAATGAAAGCAAGgcaagcttattttgtcctacgttt---tgttgtttatagagcttgcaatcaggaacagg--cccagagtttggactcatgtt-aatta--tggtcgatatggagatta-----
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GAATTCCCTTTGGATCTGTCAATCTATTGCATGGAGTTGATGAACATGAAAGCAAGGCAAAGCCTCTCTgtattttctttccctcttatgtgaaaaatctgttttatactccaacatttcttaatgcatactcatactgaagcagctaatcatcttgtgggacaattccMapped 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|29678673|gb|CB674948.1|CB674948EST: CATTTGGATCAGTAAATTTATTGTATGGAGTCGATGAAAATGAAAGCAAG ATAACTTCAACAGCTGGTGGTGGCACTTTGACACTGGAATTTGGTGTCCTG
genomic: CATTTGGATCAGTAAATTTATTGTATGGAGTCGATGAAAATGAAAGCAAGgcaagcttat ... gtaataacagATAACTTCAACAGCTGGTGGTGGCACTTTGACACTGGAATTTGGTGTCCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATTCCATTTGGATCAGTAAATTTATTGTATGGAGTCGATGAAAATGAAAGCAAGgcaagcttattttgtcctacgttttgttgtttatagagcttgcaatcaggaacaggcccagagtttggactcatgttaattatggtcgatatggagatta
- - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG