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mmu_circHdlbp_260
Basic information of circular RNA
PanCircBase ID:
mmu_circHdlbp_260
mm39_Chr. Position ID:
chr1|93341548|93342688|-
Gene name:
Hdlbp
Transcript:
ENSMUST00000170883.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
22,21
Exon/intron offsets:
0,985
Genomic length:
1140
Exon/intron sizes in nt:
1,05,155
Flanking exon/introns:
chr1:93341347-93341548|chr1:93342688-93344222
Splice length:
260
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTCACAGTGTAGAGCCTTCCATCCAGGAGAATGGAGATGAGGCTGGAGAGGGCAGAGAGGCCAAGGAGACCGACCCTGGCTCTCCCAGGAGGTGTGACATCATAATCATCTCTGGCCGGAAAGAGAAATGCGAGGCTGCCAAGGAAGCCCTGGAGGCACTGGTTCCAGTCACCATCGAGGTAGAGGTACCCTTTGATCTTCACCGCTACATCATTGGGCAAAAAGGAAGTGGAATCCGCAAGATGATGGATGAGTTTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGCTACATCATTGGGCAA
60.03
ATGTCACACCTCCTGGGAGA
59.88
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTCCAGTCACCATCGAGG
60.11
CCTCTCCAGCCTCATCTCCA
60.4
151
PCR template sequence:
GGTTCCAGTCACCATCGAGGTAGAGGTACCCTTTGATCTTCACCGCTACATCATTGGGCAAAAAGGAAGTGGAATCCGCAAGATGATGGATGAGTTTGAGTTCACAGTGTAGAGCCTTCCATCCAGGAGAATGGAGATGAGGCTGGAGAGGGCAGAGAGGCCAAGGAGACCGACCCTGGCTCTCCCAGGAGGTGTGACAT
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-134-5p(1), mmu-miR-136-5p(1), mmu-miR-207(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGATGAGTTTGAGTTCACAGTGTAGA
siRNA sets
CTACACTGTGAACTCAAAC, TACACTGTGAACTCAAACT, ACACTGTGAACTCAAACTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.396793852
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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