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mmu_ciRhbdd3_744
Basic information of circular RNA
PanCircBase ID:
mmu_ciRhbdd3_744
mm39_Chr. Position ID:
chr11|5054404|5055148|+
Gene name:
Rhbdd3
Transcript:
ENSMUST00000101610.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
744
Exon/intron sizes in nt:
744
Flanking exon/introns:
chr11:5054404-5055184
Splice length:
744
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATCCTTTGCCTGAGCCCAGAGCCCACATGAACCTCACTGGGCCTCTTGGGTGCCTTGAAAAGAACTGGCACAAGGGAGTCATGTCTAAGCAATGCCAGGTCACCAAACACCTGTTCCTGACACATCTTCTTTTGAGCAATGCTCTGGGCTGGGGACAGGGCTCATGGCCAAGTGGAGGTAGGTGTCTTTTATCATCAAAGAACCCTATGAGATGCTTGGAGAGGAGAAGGGGCCTGAGAAGTCACTAACCTGGATCCTGTGTGAAGGTGGCATCAAAGCTAAGATGGGCAGGCTGGGTACAGGGCGTAACTGAGAGGAAGGCTCAGTGTGGGAGCAAGCCTGAGGCTCTCTGGGAACAGAGTGCCAACGTGGGCCCGTGGTACAGGTATCTTAAACATCAGCTTTACTCCCAAGATATGGGAAAAACAGCCACCGAAGAGAACAGGCTGACCCATCTAGACATTCAGGCTATATGTGAGTCACAGGATCATTTCAGAATGCAGACACCAGTCACGCCAGTCTGGCTGACAGGAGGAGGATCTGTCTTCAGGCACACAGGATCTGGGAAGAGGCTTATGAGGTGGATGAGGGAGAAGTTCTGCCCCTCTGGCTGACTGGTTTCAGGCAGCGCATTTTGTTCTTGGCTTGAGCTGTTGATGTAAAGGAGAATGTGGTCCTGAGGGAGGTAGCAAGGCGAGACACGGGAATGCCCACACATGGCCTTTATCCCACGTCATCCTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGTCCTGAGGGAGGTAG
59.96
GACATGACTCCCTTGTGCCA
59.96
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGTCCTGAGGGAGGTAG
59.96
CATGACTCCCTTGTGCCAGT
59.96
158
PCR template sequence:
GGCTTGAGCTGTTGATGTAAAGGAGAATGTGGTCCTGAGGGAGGTAGCAAGGCGAGACACGGGAATGCCCACACATGGCCTTTATCCCACGTCATCCTGTGTATCCTTTGCCTGAGCCCAGAGCCCACATGAACCTCACTGGGCCTCTTGGGTGCCTTGAAAAGAACTGGCACAAGGGAGTCATGTCTAAGCAATGCCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-203-3p(1), mmu-miR-320-3p(1), mmu-miR-339-5p(1), mmu-miR-24-3p(1), mmu-miR-1187(1), mmu-miR-207(1), mmu-miR-188-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
CACGTCATCCTGTGTATCCTTTGCCT
siRNA sets
AAAGGATACACAGGATGAC, AAGGATACACAGGATGACG, AGGCAAAGGATACACAGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRHBDD3_744_ORF_1
0.8037
-0.120906216
0.092295402
276
ORF sequence:
ATGGCCTTTATCCCACGTCATCCTGTGTATCCTTTGCCTGAGCCCAGAGCCCACATGAACCTCACTGGGCCTCTTGGGTGCCTTGAAAAGAACTGGCACAAGGGAGTCATGTCTAAGCAATGCCAGGTCACCAAACACCTGTTCCTGACACATCTTCTTTTGAGCAATGCTCTGGGCTGGGGACAGGGCTCATGGCCAAGTGGAGGTAGGTGTCTTTTATCATCAAAGAACCCTATGAGATGCTTGGAGAGGAGAAGGGGCCTGAGAAGTCACTAA
Peptide sequence:
MAFIPRHPVYPLPEPRAHMNLTGPLGCLEKNWHKGVMSKQCQVTKHLFLTHLLLSNALGWGQGSWPSGGRCLLSSKNPMRCLERRRGLRSH
IRESfinder result
IRESfinder score
0.465931637
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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