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mmu_circRc3h1_537
Basic information of circular RNA
PanCircBase ID:
mmu_circRc3h1_537
mm39_Chr. Position ID:
chr1|160765681|160768564|+
Gene name:
Rc3h1
Transcript:
ENSMUST00000161609.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,1883,2707
Genomic length:
2883
Exon/intron sizes in nt:
12,12,40,176
Flanking exon/introns:
chr1:160757914-160765681|chr1:160768564-160770097
Splice length:
537
Other database IDs:
circAtlas: mmu-Rc3h1_0010
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATCCCTGAGCAACAGCCCATTACTTTGTGTAGTGGGGTTGAAGATACAAAGCATTATGAGGAAGCCAAGAAATGTGTAGAAGAATTAGCATTGTACCTGAAGCCACTCAGCAGTGCGAGAGGTGTGGGTCTAAATAGCACTACTCAGAGTGTTCTGAGTCGCCCAATGCAGAGGAAACTTGTGACTCTGGTTCATTGCCAGCTAGTGGAAGAAGAAGGCAGGATCCGTGCTATGAGGGCTGCTCGATCTTTAGGTGAACGCACAGTTACAGAGCTCATTCTCCAGCACCAGAATCCTCAGCAACTCTCTTCTAATCTCTGGGCAGCAGTCAGAGCTAGGGGCTGCCAGTTCCTTGGACCAGCGATGCAGGAGGAAGCTCTGAAGCTGGTCTTGCTGGCCTTAGAAGATGGTTCTGCATTGTCTCGGAAAGTGTTGGTTCTCTTCGTGGTGCAAAGACTGGAGCCACGTTTTCCTCAAGCCTCTAAAACCAGCATTGGGCATGTTGTTCAGCTCCTCTACAGAGCCTCCTGCTTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCGTGGTGCAAAGACTGGA
59.82
TGCTTTGTATCTTCAACCCCAC
58.85
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCGTGGTGCAAAGACTGGA
59.82
TGCTTTGTATCTTCAACCCCACT
60.18
149
PCR template sequence:
TCTCTTCGTGGTGCAAAGACTGGAGCCACGTTTTCCTCAAGCCTCTAAAACCAGCATTGGGCATGTTGTTCAGCTCCTCTACAGAGCCTCCTGCTTCAAGATCCCTGAGCAACAGCCCATTACTTTGTGTAGTGGGGTTGAAGATACAAAGCATTATGAGGAAGCCAAGAAATGTGTAGAAGAATTAGCATTGTACCTGA
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-155-5p(1), mmu-miR-134-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCTGCTTCAAGATCCCTGAGCAAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRC3H1_537_ORF_1
0.9546
0.136615217
0.974047657
909
ORF sequence:
ATGCAGAGGAAACTTGTGACTCTGGTTCATTGCCAGCTAGTGGAAGAAGAAGGCAGGATCCGTGCTATGAGGGCTGCTCGATCTTTAGGTGAACGCACAGTTACAGAGCTCATTCTCCAGCACCAGAATCCTCAGCAACTCTCTTCTAATCTCTGGGCAGCAGTCAGAGCTAGGGGCTGCCAGTTCCTTGGACCAGCGATGCAGGAGGAAGCTCTGAAGCTGGTCTTGCTGGCCTTAGAAGATGGTTCTGCATTGTCTCGGAAAGTGTTGGTTCTCTTCGTGGTGCAAAGACTGGAGCCACGTTTTCCTCAAGCCTCTAAAACCAGCATTGGGCATGTTGTTCAGCTCCTCTACAGAGCCTCCTGCTTCAAGATCCCTGAGCAACAGCCCATTACTTTGTGTAGTGGGGTTGAAGATACAAAGCATTATGAGGAAGCCAAGAAATGTGTAGAAGAATTAGCATTGTACCTGAAGCCACTCAGCAGTGCGAGAGGTGTGGGTCTAAATAGCACTACTCAGAGTGTTCTGAGTCGCCCAATGCAGAGGAAACTTGTGACTCTGGTTCATTGCCAGCTAGTGGAAGAAGAAGGCAGGATCCGTGCTATGAGGGCTGCTCGATCTTTAGGTGAACGCACAGTTACAGAGCTCATTCTCCAGCACCAGAATCCTCAGCAACTCTCTTCTAATCTCTGGGCAGCAGTCAGAGCTAGGGGCTGCCAGTTCCTTGGACCAGCGATGCAGGAGGAAGCTCTGAAGCTGGTCTTGCTGGCCTTAGAAGATGGTTCTGCATTGTCTCGGAAAGTGTTGGTTCTCTTCGTGGTGCAAAGACTGGAGCCACGTTTTCCTCAAGCCTCTAAAACCAGCATTGGGCATGTTGTTCAGCTCCTCTACAGAGCCTCCTGCTTCAAG
Peptide sequence:
MQRKLVTLVHCQLVEEEGRIRAMRAARSLGERTVTELILQHQNPQQLSSNLWAAVRARGCQFLGPAMQEEALKLVLLALEDGSALSRKVLVLFVVQRLEPRFPQASKTSIGHVVQLLYRASCFKIPEQQPITLCSGVEDTKHYEEAKKCVEELALYLKPLSSARGVGLNSTTQSVLSRPMQRKLVTLVHCQLVEEEGRIRAMRAARSLGERTVTELILQHQNPQQLSSNLWAAVRARGCQFLGPAMQEEALKLVLLALEDGSALSRKVLVLFVVQRLEPRFPQASKTSIGHVVQLLYRASCFK
IRESfinder result
IRESfinder score
0.583986208
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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