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mmu_circBard1_938
Basic information of circular RNA
PanCircBase ID:
mmu_circBard1_938
mm39_Chr. Position ID:
chr1|71113701|71114639|-
Gene name:
Bard1
Transcript:
ENSMUST00000027393.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
938
Exon/intron sizes in nt:
938
Flanking exon/introns:
chr1:71106347-71113701|chr1:71114639-71127267
Splice length:
938
Other database IDs:
circAtlas: mmu-Bard1_0009
circBase: hsa_circ_0058054, circAtlas: hsa-BARD1_0010, CIRCpedia: HSA_CIRCpedia_114168
Human Ortholog IDs:
Mature spliced Sequence:
ATTCAAAAGACAACACATCTAGGGCAAGTTTATTTGGTGATGCAGAAAGGAAGAAGAATTCAATAAAAATGTGGTTTAGTCCTCGAAGTAAGAAGGTTAGATATGTTGTGACTAAAGTGTCAGTACAAACACAGCCTCAAAAGGCAAAGGACGACAAAGCCCAGGAAGCCTCAATGTATGAATTTGTTTCCGCAACTCCCCCTGTAGCTGTTCCTAAGAGTGCTAAAACAGCTTCTAGAACATCTGCAAAAAAGCATCCAAAGAAATCTGTAGCTAAGATCAACAGGGAGGAGAATTTAAGGCCAGAAACAAAGGATAGTAGATTTGATTCCAAAGAGGAGCTGAAGGAAGAGAAGGTTGTCTCCTGTAGCCAAATACCAGTTATGGAGAGACCACGGGTAAATGGTGAAATAGACTTATTAGCAAGTGGTTCTGTTGTAGAACCTGAATGTTCTGGAAGCTTGACTGAAGTCTCTTTACCATTGGCTGAGCATATAGTGTCTCCAGACACTGTGAGCAAGAATGAAGAGACTCCGGAGAAGAAGGTCTGTGTAAAAGATCTTCGTTCAGGAGGGAGTAATGGAAATCGTAAAGGCTGCCACAGGCCTACCACTTCTACTTCTGACAGTTGTGGGAGCAACATTCCGAGCACCAGCAGAGGCATCGGTGAGCCAGCATTGCTTGCAGAAAACGTAGTGTTGGTTGACTGCTCTTCACTGCCTTCAGGCCAGCTACAGGTTGATGTCACACTCAGGAGAAAGAGTAACGCATCAGATGACCCCCTTAGCCTTTCACCGGGCACACCCCCACCTCTGCTGAACAATTCAACTCACAGACAAATGATGTCAAGCCCCTCCACAGTGAAGCTGTCTTCTGGTATGCCAGCCAGGAAAAGAAATCACAGAGGAGAGACCTTACTTCATATTGCTTCTATTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGATGTCAAGCCCCTCCAC
59.74
GCATCACCAAATAAACTTGCCCT
60.06
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGATGTCAAGCCCCTCCAC
59.74
TCTTCTTCCTTTCTGCATCACCA
59.93
156
PCR template sequence:
AATGATGTCAAGCCCCTCCACAGTGAAGCTGTCTTCTGGTATGCCAGCCAGGAAAAGAAATCACAGAGGAGAGACCTTACTTCATATTGCTTCTATTAAGATTCAAAAGACAACACATCTAGGGCAAGTTTATTTGGTGATGCAGAAAGGAAGAAGAATTCAATAAAAATGTGGTTTAGTCCTCGAAGTAAGAAGGTTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-34c-5p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-34b-5p(1), mmu-miR-325-3p(1), mmu-miR-207(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTTCTATTAAGATTCAAAAGACAA
siRNA sets
TTTTGAATCTTAATAGAAG, TCTTTTGAATCTTAATAGA, TTTGAATCTTAATAGAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBARD1_938_ORF_1
1.0034
0.019792096
0.96815227
936
ORF sequence:
ATGTGGTTTAGTCCTCGAAGTAAGAAGGTTAGATATGTTGTGACTAAAGTGTCAGTACAAACACAGCCTCAAAAGGCAAAGGACGACAAAGCCCAGGAAGCCTCAATGTATGAATTTGTTTCCGCAACTCCCCCTGTAGCTGTTCCTAAGAGTGCTAAAACAGCTTCTAGAACATCTGCAAAAAAGCATCCAAAGAAATCTGTAGCTAAGATCAACAGGGAGGAGAATTTAAGGCCAGAAACAAAGGATAGTAGATTTGATTCCAAAGAGGAGCTGAAGGAAGAGAAGGTTGTCTCCTGTAGCCAAATACCAGTTATGGAGAGACCACGGGTAAATGGTGAAATAGACTTATTAGCAAGTGGTTCTGTTGTAGAACCTGAATGTTCTGGAAGCTTGACTGAAGTCTCTTTACCATTGGCTGAGCATATAGTGTCTCCAGACACTGTGAGCAAGAATGAAGAGACTCCGGAGAAGAAGGTCTGTGTAAAAGATCTTCGTTCAGGAGGGAGTAATGGAAATCGTAAAGGCTGCCACAGGCCTACCACTTCTACTTCTGACAGTTGTGGGAGCAACATTCCGAGCACCAGCAGAGGCATCGGTGAGCCAGCATTGCTTGCAGAAAACGTAGTGTTGGTTGACTGCTCTTCACTGCCTTCAGGCCAGCTACAGGTTGATGTCACACTCAGGAGAAAGAGTAACGCATCAGATGACCCCCTTAGCCTTTCACCGGGCACACCCCCACCTCTGCTGAACAATTCAACTCACAGACAAATGATGTCAAGCCCCTCCACAGTGAAGCTGTCTTCTGGTATGCCAGCCAGGAAAAGAAATCACAGAGGAGAGACCTTACTTCATATTGCTTCTATTAAGATTCAAAAGACAACACATCTAGGGCAAGTTTATTTGGTGATGCAGAAAGGAAGAAGAATTCAATAA
Peptide sequence:
MWFSPRSKKVRYVVTKVSVQTQPQKAKDDKAQEASMYEFVSATPPVAVPKSAKTASRTSAKKHPKKSVAKINREENLRPETKDSRFDSKEELKEEKVVSCSQIPVMERPRVNGEIDLLASGSVVEPECSGSLTEVSLPLAEHIVSPDTVSKNEETPEKKVCVKDLRSGGSNGNRKGCHRPTTSTSDSCGSNIPSTSRGIGEPALLAENVVLVDCSSLPSGQLQVDVTLRRKSNASDDPLSLSPGTPPPLLNNSTHRQMMSSPSTVKLSSGMPARKRNHRGETLLHIASIKIQKTTHLGQVYLVMQKGRRIQ
IRESfinder result
IRESfinder score
0.550914335
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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