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mmu_circWdr47_1139
Basic information of circular RNA
PanCircBase ID:
mmu_circWdr47_1139
mm39_Chr. Position ID:
chr3|108517192|108526608|+
Gene name:
Wdr47
Transcript:
ENSMUST00000051145.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,1479,4456,8613
Genomic length:
9416
Exon/intron sizes in nt:
167,84,85,803
Flanking exon/introns:
chr3:108498913-108517192|chr3:108526608-108530638
Splice length:
1139
Other database IDs:
CIRCpedia: MMU_CIRCpedia_221089, circAtlas: mmu-Wdr47_0017
circBase: hsa_circ_0110361, circAtlas: hsa-WDR47_0023, CIRCpedia: HSA_CIRCpedia_69162
Human Ortholog IDs:
Mature spliced Sequence:
GCTAGCAATATGACTGCTGAAGAAACGGTGAATGTGAAAGAGGTTGAGATCATTAAGCTGATTTTGGACTTCTTGAATTCAAAGAAGCTTCACATTAGTATGCTGGCGCTGGAGAAGGAAAGTGGAGTCATAAATGGCCTGTTTTCAGATGATATGCTCTTCCTGAGGCAGCTGATCCTGGATGGCCAATGGGATGAAGTTCTTCAGTTCATTCAGCCTCTAGAATGTATGGAGAAATTTGACAAAAAAAGGTTTCGTTATATTATCCTGAAGCAGAAGTTTCTAGAAGCTTTGTGTGTTAACAATGCAATGTCTGCAGAAGATGAGCCCCAGCATTTGGAATTTACCATGCAGGAAGCGGTGCAGTGTCTGCATGCTCTGGAGGAGTACTGCCCTTCTAAAGACGATTACAGCAAGCTATGTCTGCTCCTCACCTTGCCTCGTTTGACCAATCACGCTGAGTTTAAGGACTGGAATCCCAGCACTGCACGAGTTCACTGCTTTGAAGAGGTCTGTGTCATGGTTGCAGAGTTCATTCCTGCTGACAGGAAGCTAAGTGAGGCTGGTTTTAAAGCAAGTAACAATCGCTTATTCCAGCTCGTAATGAAGGGCCTACTTTATGAATGCTGCGTAGAATTTTGTCAGAGTAAAGCAACTGGTGAAGAAATTACAGAAAGTGAAGTCCTTCTTGGCATCGACCTGTTATGTGGCAACGGTTGTGACGATTTAGATCTAAGTTTATTGTCTTGGCTTCAGAATCTCCCTTCTTCAGTCTTTTCTTGTGCATTTGAACAGAAAATGCTTAATATTCATGTTGACAAACTTCTGAAGCCTACAAAAGCTGCATATGCTGATCTGTTGACTCCTCTTATCAGCAAACTGTCTCCCTACCCTTCATCTCCAATGAGAAGACCTCAGTCAGCTGATGCCTATATGACTCGCTCTCTCAATCCTGCTTTGGATGGCCTCACATGTGGGTTAACCAGTCATGATAAGAGGATCTCAGATCTTGGGAACAAAACTTCTCCAATGTCACACTCCTTTGCTAACTTCCACTATCCAGGGGTACAGAACCTCAGCAGAAGTCTCATGCTTGAGAATACAGAGTGTCACAGCATCTATGAAGAATCTCCTGAGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACTTCCACTATCCAGGGGT
57.64
CTCAACCTCTTTCACATTCACCG
59.81
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTAACTTCCACTATCCAGGG
59.23
CAACCTCTTTCACATTCACCGT
59.12
142
PCR template sequence:
CCTTTGCTAACTTCCACTATCCAGGGGTACAGAACCTCAGCAGAAGTCTCATGCTTGAGAATACAGAGTGTCACAGCATCTATGAAGAATCTCCTGAGCGGCTAGCAATATGACTGCTGAAGAAACGGTGAATGTGAAAGAGGTTGAGATCATTAAGCTGATTTTGGACTTCTTGAATTCAAAGAAGCTTCACATTAGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-181a-5p(1), mmu-miR-103-3p(1), mmu-miR-122-5p(1), mmu-miR-205-5p(1), mmu-miR-146a-5p(1), mmu-miR-33-5p(1), mmu-miR-320-3p(1), mmu-miR-143-3p(1), mmu-miR-181b-5p(1), mmu-miR-22-3p(1), mmu-miR-425-5p(1), mmu-miR-107-3p(1), mmu-miR-3470b(1), mmu-miR-146b-5p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATCTCCTGAGCGGCTAGCAATATGA
siRNA sets
ATATTGCTAGCCGCTCAGG, TATTGCTAGCCGCTCAGGA, ATTGCTAGCCGCTCAGGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCWDR47_1139_ORF_1
0.9844
0.13168146
0.995135606
1143
ORF sequence:
ATGACTGCTGAAGAAACGGTGAATGTGAAAGAGGTTGAGATCATTAAGCTGATTTTGGACTTCTTGAATTCAAAGAAGCTTCACATTAGTATGCTGGCGCTGGAGAAGGAAAGTGGAGTCATAAATGGCCTGTTTTCAGATGATATGCTCTTCCTGAGGCAGCTGATCCTGGATGGCCAATGGGATGAAGTTCTTCAGTTCATTCAGCCTCTAGAATGTATGGAGAAATTTGACAAAAAAAGGTTTCGTTATATTATCCTGAAGCAGAAGTTTCTAGAAGCTTTGTGTGTTAACAATGCAATGTCTGCAGAAGATGAGCCCCAGCATTTGGAATTTACCATGCAGGAAGCGGTGCAGTGTCTGCATGCTCTGGAGGAGTACTGCCCTTCTAAAGACGATTACAGCAAGCTATGTCTGCTCCTCACCTTGCCTCGTTTGACCAATCACGCTGAGTTTAAGGACTGGAATCCCAGCACTGCACGAGTTCACTGCTTTGAAGAGGTCTGTGTCATGGTTGCAGAGTTCATTCCTGCTGACAGGAAGCTAAGTGAGGCTGGTTTTAAAGCAAGTAACAATCGCTTATTCCAGCTCGTAATGAAGGGCCTACTTTATGAATGCTGCGTAGAATTTTGTCAGAGTAAAGCAACTGGTGAAGAAATTACAGAAAGTGAAGTCCTTCTTGGCATCGACCTGTTATGTGGCAACGGTTGTGACGATTTAGATCTAAGTTTATTGTCTTGGCTTCAGAATCTCCCTTCTTCAGTCTTTTCTTGTGCATTTGAACAGAAAATGCTTAATATTCATGTTGACAAACTTCTGAAGCCTACAAAAGCTGCATATGCTGATCTGTTGACTCCTCTTATCAGCAAACTGTCTCCCTACCCTTCATCTCCAATGAGAAGACCTCAGTCAGCTGATGCCTATATGACTCGCTCTCTCAATCCTGCTTTGGATGGCCTCACATGTGGGTTAACCAGTCATGATAAGAGGATCTCAGATCTTGGGAACAAAACTTCTCCAATGTCACACTCCTTTGCTAACTTCCACTATCCAGGGGTACAGAACCTCAGCAGAAGTCTCATGCTTGAGAATACAGAGTGTCACAGCATCTATGAAGAATCTCCTGAGCGGCTAGCAATATGA
Peptide sequence:
MTAEETVNVKEVEIIKLILDFLNSKKLHISMLALEKESGVINGLFSDDMLFLRQLILDGQWDEVLQFIQPLECMEKFDKKRFRYIILKQKFLEALCVNNAMSAEDEPQHLEFTMQEAVQCLHALEEYCPSKDDYSKLCLLLTLPRLTNHAEFKDWNPSTARVHCFEEVCVMVAEFIPADRKLSEAGFKASNNRLFQLVMKGLLYECCVEFCQSKATGEEITESEVLLGIDLLCGNGCDDLDLSLLSWLQNLPSSVFSCAFEQKMLNIHVDKLLKPTKAAYADLLTPLISKLSPYPSSPMRRPQSADAYMTRSLNPALDGLTCGLTSHDKRISDLGNKTSPMSHSFANFHYPGVQNLSRSLMLENTECHSIYEESPERLAI
IRESfinder result
IRESfinder score
0.64508829
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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