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mmu_circ4833420G17Rik_737
Basic information of circular RNA
PanCircBase ID:
mmu_circ4833420G17Rik_737
mm39_Chr. Position ID:
chr13|119603402|119606697|+
Gene name:
4833420G17Rik
Transcript:
ENSMUST00000026519.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,2648
Genomic length:
3295
Exon/intron sizes in nt:
90,647
Flanking exon/introns:
chr13:119602840-119603402|chr13:119606697-119608674
Splice length:
737
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215485, circAtlas: mmu-4833420G17Rik_0001
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAGCAACTTCAGCGGGCCCTAGATTTTCGAAACTCTTCAGCTACATGCCCTTTTTTATCTGAAAGCATCATACCTCCTGAAAGAAAAAAGCATATCTTCATTGATTTCTCGGAAGTAGAATGGCCCAGCCTTGACAGAGATGACTGCATCATGTACTCGGAGAGTGGCGTGGTGAAGATAACATCCCTGGATGGACACGCGTACCTTTGTCTGCCCAGATCTCAGCATGAATTTACAGTACATTTTTTGTGTAAAGTGAGCCAGAGGCCAGATTCATCTGGCATACTATCCGAAACACAGAATCAGGACCCCAAAAATAAACTAGTTGAGAAGACCAGAAAAGTCTGCAGATGTGGAAATTTATCAGAACAAACGTTAAGGAATAAAGAAAACGAACCTCCTTACCAGATCTTGAAATCTAAAAACGCTTCAGTGAACACATGTTGTGTGAATGACAGTGAGGGGAGAGGGGAGCTTCCTTCCCTGGGCACAAATCACAGATGTGTGTACGCATGGGTAAAGCAGGCTTGGTCTGTTGCCGCCTGTCCAGAGGCGTGGAAACACCCTCTGTCTTTAGCACTTCGTTTTTATAACAAAGTTCGTGCTGCATCTGAAATTGATGCAGATTTCCCTGCGAGTAGCATTGTGACTTCTGACTGTCCTGAAGAAAGAGGAACGGAGGTTTCTGTCCTTCCCAGGGCCTTGTTACTCAGCTGCCCTGCCCCACACATGCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATTGTGACTTCTGACTGTCC
59.52
AGGGCATGTAGCTGAAGAGT
58.42
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGAGGTTTCTGTCCTTCCC
60.04
TCAGGAGGTATGATGCTTTCAGA
58.97
141
PCR template sequence:
GTAGCATTGTGACTTCTGACTGTCCTGAAGAAAGAGGAACGGAGGTTTCTGTCCTTCCCAGGGCCTTGTTACTCAGCTGCCCTGCCCCACACATGCACAGGAGCAACTTCAGCGGGCCCTAGATTTTCGAAACTCTTCAGCTACATGCCCTTTTTTATCTGAAAGCATCATACCTCCTGAAAGAAAAAAGCATATCTTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-382-3p(1), mmu-miR-224-5p(1), mmu-miR-1198-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACACATGCACAGGAGCAACTTCAGC
siRNA sets
GCTGAAGTTGCTCCTGTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4833420G17RIK_737_ORF_1
0.6241
-0.030644593
0.538043328
609
ORF sequence:
ATGTACTCGGAGAGTGGCGTGGTGAAGATAACATCCCTGGATGGACACGCGTACCTTTGTCTGCCCAGATCTCAGCATGAATTTACAGTACATTTTTTGTGTAAAGTGAGCCAGAGGCCAGATTCATCTGGCATACTATCCGAAACACAGAATCAGGACCCCAAAAATAAACTAGTTGAGAAGACCAGAAAAGTCTGCAGATGTGGAAATTTATCAGAACAAACGTTAAGGAATAAAGAAAACGAACCTCCTTACCAGATCTTGAAATCTAAAAACGCTTCAGTGAACACATGTTGTGTGAATGACAGTGAGGGGAGAGGGGAGCTTCCTTCCCTGGGCACAAATCACAGATGTGTGTACGCATGGGTAAAGCAGGCTTGGTCTGTTGCCGCCTGTCCAGAGGCGTGGAAACACCCTCTGTCTTTAGCACTTCGTTTTTATAACAAAGTTCGTGCTGCATCTGAAATTGATGCAGATTTCCCTGCGAGTAGCATTGTGACTTCTGACTGTCCTGAAGAAAGAGGAACGGAGGTTTCTGTCCTTCCCAGGGCCTTGTTACTCAGCTGCCCTGCCCCACACATGCACAGGAGCAACTTCAGCGGGCCCTAG
Peptide sequence:
MYSESGVVKITSLDGHAYLCLPRSQHEFTVHFLCKVSQRPDSSGILSETQNQDPKNKLVEKTRKVCRCGNLSEQTLRNKENEPPYQILKSKNASVNTCCVNDSEGRGELPSLGTNHRCVYAWVKQAWSVAACPEAWKHPLSLALRFYNKVRAASEIDADFPASSIVTSDCPEERGTEVSVLPRALLLSCPAPHMHRSNFSGP
IRESfinder result
IRESfinder score
0.697182557
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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