Sequence
atgc intronic sequence ATGC exonic sequenceATTTTCTGGAAGAGTTGGCTGCCTAGGGAGGGCACTGCCACCAAGGCAGCACTTTTCTTCTGCCATGGATATGGTGATACTTGCACTTTCTTTTTCGAAGgtgattattccgctactgctactgttatgttcttctgttgagttctctttttgttgcctgcttgtttatgcatattttactttcttggaattatcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g49380.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g49380.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G085438_T04 (Zea mays), 5'ss of exon 2
ATTTTCTGGAAGAGTTGGCTGCCTAGGGAGGGCACTGCCACCAAGGCAGCACTTTTCTTCTGCCATGGATATGGTGATACTTGCACTTTCTTTTTCGAAGgtgattattccgctactgctactgttatgttcttctgttgagttctctttttgttgcctgcttgtttatgcatattttactttcttggaattatcag
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ATATTCTGGAAGAGTTGGCTGCCAAGAGAGGGCACTGCAACTAAGGCTGCACTTTTCTTCTGCCATGGATATGGGGATACCTGCACTTTCTTTTTTGAAGgtgacattactttttctgtta-tgttttgat-ttgcatttatcattcctttgcatgcatgcttattaat-tattattaacaagcttgagatta-cag
upper sequence: LOC_Os01g49380.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA01G19820.1 (Glycine max), 5'ss of exon 3
ATTTTCTGGAAGAGTTGGCTGCCTAGGGAGGGCACTGCCACCAAGGCAGCACTTTTCTTCTGCCATGGATATGGTGATACTTGCACTTTCTTTTTCGAAGgtgattattccgctactgctactgttatgttcttctgttgagttctctttttgttgcctgcttgtttatgcatattttactttcttggaattatcag
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ATTTTCTGCAAAAGCTGGATGCCAAAGCCTGGCATTCCAATCAAGGCCTCTGTGTGTTTCTGTCATGGATATGGTGATACTTGCACCTTCTTTTTTGAAGgt--ttgtaatggtgtgtgttgtgttatatgtttctaacgaagctaaagtttgtcgtgcatgatttgggggacgatttgaatt-ttgtattcag---
upper sequence: LOC_Os01g49380.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv01s0011g03620.t01 (Vitis vinifera), 5'ss of exon 3
ATTTTCTGGAAGAGTTGGCTGCCTAGGGAGGGCACTGCCACCAAGGCAGCACTTTTCTTCTGCCATGGATATGGTGATACTTGCACTTTCTTTTTCGAAGgtgattattccgctactgctactgttatgttcttctgttgagttctctttttgttgcctgcttgtttatgcatatttta-----ctttcttggaattatcag-
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ATTTTCAGCAAATGCTGGTTGCCTAAACCGGGAATTCGAACGAAAGGCTCCTTGTGTTTCTGCCATGGATATGGTGACACTTGCACTTTCTTCTTTGAAGgttagtgattctgcacatct-cttatgtaatttcttttcgaattaa-tcactggtgctt-caaacctaaaactattaaaagaggcagtggagaagctttcagaMapped 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|27548274|gb|CA767490.2|CA767490EST: ACTTTTCTTCTGCCATGGATATGGTGATACTTGCACTTTCTCTTTCGAAG GGATTGCGAAGAGAATTGCAGCAGCAGGATATGCAGTATATGCTATGGATT
genomic: ACTTTTCTTCTGCCATGGATATGGTGATACTTGCACTTTCTTTTTCGAAGgtgattattc ... gaattatcagGGATTGCGAAGAGAATTGCAGCAGCAGGATATGCAGTATATGCTATGGATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTTCTGGAAGAGTTGGCTGCCTAGGGAGGGCACTGCCACCAAGGCAGCACTTTTCTTCTGCCATGGATATGGTGATACTTGCACTTTCTTTTTCGAAGgtgattattccgctactgctactgttatgttcttctgttgagttctctttttgttgcctgcttgtttatgcatattttactttcttggaattatcag
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