Sequence
atgc intronic sequence ATGC exonic sequenceACTGCCATATATGTATTCTTCTCCCGTAGAAAGAAGGATAATACTGTCATGCCATGGGCTACAGGGCTGAGTGGACAGCTAAAGAAGGCATTTGTAACAGgttggtttttctgttccatcatcatcttaccaatgcagaagttaagactatttcatggttaaatgaacttgtcagtttctgtagaaatttgttttctgca...
Basic information
species | Oryza sativa |
transcript | LOC_Os12g01510.3 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os12g01510.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA18G06670.1 (Glycine max), 5'ss of exon 5
ACTGCCATATATGTATTCTTCTCCCGTAGAAAGAAGGATAATACTGTCATGCCATGGGCTACAGGGCTGAGTGGACAGCTAAAGAAGGCATTTGTAACAGgt---tggtttt----tctgttccatcatcatcttaccaatgcagaagttaagact----atttcatggt-taaatgaacttgtcagtttctgtagaaatttgttttctgca--------------------------------------------------------------------
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TCAGCCATTGCTTTTGTTTGCTTCAGAAGTAACAAGGTTGTAACTGTAAAACCTTGGACCACAGGGCTGAGTGGCCAGCTGCAGAAGGCATTTGTATCAGgtaattggtgctcatatttactttgtttacatcattggcatgctcagctatagatttcaaactgcaaaatgcatattaattattaactaactagaataatgtttatgttcaagtctttccatctttaacaagtggttctttgtttgaaattggcatactcatcgaacatgtatgatttag
upper sequence: LOC_Os12g01510.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA11G35570.1 (Glycine max), 5'ss of exon 5
ACTGCCATATATGTATTCTTCTCCCGTAGAAAGAAGGATAATACTGTCATGCCATGGGCTACAGGGCTGAGTGGACAGCTAAAGAAGGCATTTGTAACAGgttggtttttctgttccatcatcatcttaccaatgcagaagttaagactatttcatggttaaat-gaacttgtcagtttctgtagaaattt--gttttctgca-
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TCAATCATTGGCCTATATCTCTGTAAAACAAACAAGGTAGCTACTGTAAAACCTTGGGCAACAGGATTAAGTGGACAGCTTCAGAAGGCATTTGTAACAGgtaaatctcagcagtttaaaagtagttaagtagagcaatgactgaaaata----atagttaacttgcacacaactactgcttcaggattcttgaaatgcgacagMapped 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|11442867|gb|BF430766.1|BF430766EST: GCCATGGGCTACAGGGCTGAGTGGACAGCTAAAGAAGGCATTTGTAACAG GTGTGCCTTCTCTTGAGAGGACAGAACTGGAGGCGGCATGCGAGGGGTTCA
genomic: GCCATGGGCTACAGGGCTGAGTGGACAGCTAAAGAAGGCATTTGTAACAGgttggttttt ... ttgtgtgcagGTGTGCCTTCTCTTGAGAGGACAGAACTGGAGGCGGCATGCGAGGGTTTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTGCCATATATGTATTCTTCTCCCGTAGAAAGAAGGATAATACTGTCATGCCATGGGCTACAGGGCTGAGTGGACAGCTAAAGAAGGCATTTGTAACAGgttggtttttctgttccatcatcatcttaccaatgcagaagttaagactatttcatggttaaatgaacttgtcagtttctgtagaaatttgttttctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG