Sequence
atgc intronic sequence ATGC exonic sequenceGACTGGTAACGTTGAGAATTGGGGGGAGTCGACTATTGCTGATACAAGTCCAAGGACTGATACATCAACAGATCCAGACACTGATGAGAGGAATCAGATGgtaataagacgcctatcattttgaaattactgtttatcatgatgatatgaatttgtttaaaactgttcataccaggtttgggatgtttgaattttctttc...
Basic information
species | Oryza sativa |
transcript | LOC_Os01g59350.2 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g59350.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G019907_T02 (Zea mays), 5'ss of exon 1
GACTGGTAACGTTGAGAATTGGGGGGAGTCGACTATTGCTGATACAAGTCCAAGGACTGATACATCAACAGATCCAGACACTGATGAGAGGAATCAGATGgtaataagacgcctatcattttgaaattactgtttatcatgatgatatgaatttgtttaaaactgttcatac-caggtttgggatgtttgaattttctttc
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----------------------------------ATGGCTGGT---AGCCCTATGACTGACACATCTACAGATCCAGACACTGATGAGAGGAACCAGATGgtagtgaccattctcagttcactcctttcttgttctgttctattagatgaataagatatatgcttgacttatgcagaatattcatactaaggtttgctgt-
upper sequence: LOC_Os01g59350.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G125243_T02 (Zea mays), 5'ss of exon 5
---GACTGGTAACGTTGAGAATTGGGGGGAGTCGACTATTGCTGATACAAGTCCAAGGACTGATACATCAACAGATCCAGACACTGATGAGAGGAATCAGATGgtaataagacgcctatcattttgaaattactgtttatcatgatgatatgaatttgtttaaaactgttcataccaggt-ttgggatgtttgaattttctttc
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ACCAACTGGTAACATGGAGAATTGGGGAGAGTCAGCTATGGCTGGT---AGCCCTATGACTGACACATCTACAGATCCAGACACTGATGAGAGGAACCAGATGgtagcaaccattctgatttcactcctttgttggcctgttttattagatgaatatgatatgcttgattttcgcagaatattttcatgctcagattttgctg-Mapped 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|33793551|gb|CF322658.1|CF322658EST: CAAGGACTGATACATCAACAGATCCAGACACTGATGAGAGGAATCAGATG TTTGAACAAGGACAGTTAGCTGCTCCCACTGCTTCTGATTCTAGTGACAGG
genomic: CAAGGACTGATACATCAACAGATCCAGACACTGATGAGAGGAATCAGATGgtaataagac ... tacttaacagTTTGAACAAGGACAGTTAGCTGCTCCCACTGCTTCTGATTCTAGTGACAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACTGGTAACGTTGAGAATTGGGGGGAGTCGACTATTGCTGATACAAGTCCAAGGACTGATACATCAACAGATCCAGACACTGATGAGAGGAATCAGATGgtaataagacgcctatcattttgaaattactgtttatcatgatgatatgaatttgtttaaaactgttcataccaggtttgggatgtttgaattttctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG