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mmu_circRnf216_2235
Basic information of circular RNA
PanCircBase ID:
mmu_circRnf216_2235
mm39_Chr. Position ID:
chr5|143001378|143084260|-
Gene name:
Rnf216
Transcript:
ENSMUST00000053498.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,12322,52693,53222,60103,61803,64600,65339,70247,71895,74119,74496,77371,82755
Genomic length:
82882
Exon/intron sizes in nt:
2,23,98,79,14,91,38,51,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr5:142979326-143001378|chr5:143084260-143098653
Splice length:
2235
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9277, circAtlas: mmu-Rnf216_0025
Human Ortholog IDs:
Mature spliced Sequence:
AACAGATGATCACCATGTTTGGTTACTAGCAATCACACATGTTTGTATCTGAATTTGAAAATGGCAGAGGGAAACAACAAAGAGGAGGTCATTCACTTGAACAACTTTCCCTGCCACCGGGGAAAGGAATGGATGGCTGTCAGAGAGGGGCCCATCACCATATCTGACTCCTCTGATGAGGAAGGGATTCCAATGCTGGTTACCCCAGCTACAGAGCAACAGGAAGACGACCTGGATGATGATGTCATCCTGACAGAAGATGATTCTGAGGATGAATATGGTGGATTTCTGGATCTTGAGAGTGGCAAAAAAGAGGGAGAAGCCAAACCTGGACCAAGCAGTAAGCAGACAGCAGACGATATTGTCAACCCCAGATTGGAGCAGAAAGTCATTATATTGGGAGAAAATGGTCTTCTTTTCCCAGAAAGTGAGCCTTTGGAAGTTCAGAACCAATCATCCGAAGACTCAGAGACAGAGCTCTTATCAAATCCTGGAGAGCCAGCTGCCTCAGTAGATGACCAGCTAATTGGAGAAGAGTACTGGCTTGACCATCCATACTTCCAGGCTCCGAATCCACAGCCTCAGGAAAGAACAAACCAGGTTGTGCCCCAAGAGCGACATTCTGAATCAGAAATGGGCCCAATGTTTTTCCGCCATGATTTCCCAGAGCCAGCTTTTCCAAGGCCAGAACCCCAGCAGGAGGGGATTCCAGGCCCTGCTTCTCCACAGCCAGCCCATCCTCTAGGAGAGCTTGAAGACCAGCAGTTAGCAATTGATGAAGACCCTGGGCCAGCCTTCCCCCTGTCAGGACCTCAGGAGGCCAACTTGGCAAACATGTGGGAACAAGAAGCTGCTGAGGTAGATCAAGACCTCATTCCACTGTTAGTGAAAGAAACGGAAGCAAGATTTCCAGATGTAGCAAGTGGATATGTTGAAGAAATAATTCATTTGAAAAATTACTATGATTTGAATGTACTTTGTAATTTTCTTCTGGAAAACCCAGATTATCCAAAGAGAGAAGACCGGCTTATTATCCACCCCAGCAGCAGCCTGCTTGCCAGCCAGGATGACGCGAAGTTGCCTAAAATAGACTTTTTTGACTATTCCAAATTGACTCCACTTGACCAGCGCTGCTTCATCCAAGCTGCTGACCTCCTGATGGCTGATTTCAAGATGCTTAGCAGCCAGGACATCAAGTGGGCCCTTCATGAGCTCAAAGGACACTATGCAATCACCCGAAAGGCCTTTTCCGATGCCATTAAGAAATGGCAGGAGTTGTCACCTGAAACCAGTGGAAAACGGAAAAAGAGGAAAGAAATGAATCAGTATTCTTTCATAGATTTCAAGTTTGAACAAGGAAACATAAAAATAGAAAAGAGGATGTTCTTTCTGGAAAACAAGCGTCGACACTGTAGGTACTATGACCATCAGGCCCTCCTTCCAGCTGTGAAACAGGAGCAGGAATTCTATGAGCAGAAAATTAAAGAGATGGCAGAGCATGAAGACTTCTTGCTCGCCCTGCAGATGAATGAAGAACAGTATCAAAAGGATGGCCAGCTGATTGAATGCCGCTGTTGCTATGGGGAGTTTCCATTTGAGGAGCTGACACAATGCGCCGATGCTCACTTGTTCTGCAAAGAATGTCTCATCAGATATGCCCAGGAGGCAGTGTTTGGATCTGGAAAGTCAGAACTCAGCTGCATGGAAGGCAGCTGCACGTGCTCCTTCCCAACCAGTGAGCTGGAGAAGGTGCTCCCCCAGACCATTCTGTACAAATACTATGAACGGAAAGCTGAGGAAGAAGTCGCTGCAGCCTATGCTGATGAGCTTGTCCGGTGCCCCTCCTGCAGCTTCCCTGCTCTGTTGGACAGCGATGTGAAGAGGTTCAGCTGCCCCAACCCACGCTGCCGAAAGGAGACCTGTAGGAAGTGTCAGGGACTCTGGAAAGAACACAACGGCCTCACCTGTGAAGAGCTGGCAGAAAAGGATGACATCAAGTACCGGACATCCATTGAAGAAAAAATGACTGCTGCTCGGATTAGAAAATGTCACAAGTGTGGAACTGGCCTCATCAAGTCTGAAGGCTGCAACCGCATGTCTTGCCGCTGTGGTGCCCAGATGTGCTACCTCTGTCGAGTTTCTATCAATGGCTATGACCATTTCTGCCAGCATCCTCGCTCTCCAGGAGCCCCTTGCCAAGAATGTTCCAGGTGCTCCCTGTGGACCGACCCCACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCATTTCTGCCAGCATCCT
59.67
CTTTGTTGTTTCCCTCTGCCA
58.97
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCATTTCTGCCAGCATCCT
59.67
TTTGTTGTTTCCCTCTGCCA
57.85
161
PCR template sequence:
AGTTTCTATCAATGGCTATGACCATTTCTGCCAGCATCCTCGCTCTCCAGGAGCCCCTTGCCAAGAATGTTCCAGGTGCTCCCTGTGGACCGACCCCACTAACAGATGATCACCATGTTTGGTTACTAGCAATCACACATGTTTGTATCTGAATTTGAAAATGGCAGAGGGAAACAACAAAGAGGAGGTCATTCACTTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
28
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-16-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-let-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-223-3p(1), mmu-miR-31-5p(1), mmu-let-7c-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-222-3p(1), mmu-miR-320-3p(1), mmu-miR-139-5p(1), mmu-let-7d-5p(1), mmu-miR-149-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-207(1), mmu-miR-188-3p(1), mmu-miR-1904(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACCGACCCCACTAACAGATGATCAC
siRNA sets
GTGATCATCTGTTAGTGGG, ATCTGTTAGTGGGGTCGGT, TGATCATCTGTTAGTGGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRNF216_2235_ORF_1
0.9795
0.266815634
0.999998367
2184
ORF sequence:
ATGGCAGAGGGAAACAACAAAGAGGAGGTCATTCACTTGAACAACTTTCCCTGCCACCGGGGAAAGGAATGGATGGCTGTCAGAGAGGGGCCCATCACCATATCTGACTCCTCTGATGAGGAAGGGATTCCAATGCTGGTTACCCCAGCTACAGAGCAACAGGAAGACGACCTGGATGATGATGTCATCCTGACAGAAGATGATTCTGAGGATGAATATGGTGGATTTCTGGATCTTGAGAGTGGCAAAAAAGAGGGAGAAGCCAAACCTGGACCAAGCAGTAAGCAGACAGCAGACGATATTGTCAACCCCAGATTGGAGCAGAAAGTCATTATATTGGGAGAAAATGGTCTTCTTTTCCCAGAAAGTGAGCCTTTGGAAGTTCAGAACCAATCATCCGAAGACTCAGAGACAGAGCTCTTATCAAATCCTGGAGAGCCAGCTGCCTCAGTAGATGACCAGCTAATTGGAGAAGAGTACTGGCTTGACCATCCATACTTCCAGGCTCCGAATCCACAGCCTCAGGAAAGAACAAACCAGGTTGTGCCCCAAGAGCGACATTCTGAATCAGAAATGGGCCCAATGTTTTTCCGCCATGATTTCCCAGAGCCAGCTTTTCCAAGGCCAGAACCCCAGCAGGAGGGGATTCCAGGCCCTGCTTCTCCACAGCCAGCCCATCCTCTAGGAGAGCTTGAAGACCAGCAGTTAGCAATTGATGAAGACCCTGGGCCAGCCTTCCCCCTGTCAGGACCTCAGGAGGCCAACTTGGCAAACATGTGGGAACAAGAAGCTGCTGAGGTAGATCAAGACCTCATTCCACTGTTAGTGAAAGAAACGGAAGCAAGATTTCCAGATGTAGCAAGTGGATATGTTGAAGAAATAATTCATTTGAAAAATTACTATGATTTGAATGTACTTTGTAATTTTCTTCTGGAAAACCCAGATTATCCAAAGAGAGAAGACCGGCTTATTATCCACCCCAGCAGCAGCCTGCTTGCCAGCCAGGATGACGCGAAGTTGCCTAAAATAGACTTTTTTGACTATTCCAAATTGACTCCACTTGACCAGCGCTGCTTCATCCAAGCTGCTGACCTCCTGATGGCTGATTTCAAGATGCTTAGCAGCCAGGACATCAAGTGGGCCCTTCATGAGCTCAAAGGACACTATGCAATCACCCGAAAGGCCTTTTCCGATGCCATTAAGAAATGGCAGGAGTTGTCACCTGAAACCAGTGGAAAACGGAAAAAGAGGAAAGAAATGAATCAGTATTCTTTCATAGATTTCAAGTTTGAACAAGGAAACATAAAAATAGAAAAGAGGATGTTCTTTCTGGAAAACAAGCGTCGACACTGTAGGTACTATGACCATCAGGCCCTCCTTCCAGCTGTGAAACAGGAGCAGGAATTCTATGAGCAGAAAATTAAAGAGATGGCAGAGCATGAAGACTTCTTGCTCGCCCTGCAGATGAATGAAGAACAGTATCAAAAGGATGGCCAGCTGATTGAATGCCGCTGTTGCTATGGGGAGTTTCCATTTGAGGAGCTGACACAATGCGCCGATGCTCACTTGTTCTGCAAAGAATGTCTCATCAGATATGCCCAGGAGGCAGTGTTTGGATCTGGAAAGTCAGAACTCAGCTGCATGGAAGGCAGCTGCACGTGCTCCTTCCCAACCAGTGAGCTGGAGAAGGTGCTCCCCCAGACCATTCTGTACAAATACTATGAACGGAAAGCTGAGGAAGAAGTCGCTGCAGCCTATGCTGATGAGCTTGTCCGGTGCCCCTCCTGCAGCTTCCCTGCTCTGTTGGACAGCGATGTGAAGAGGTTCAGCTGCCCCAACCCACGCTGCCGAAAGGAGACCTGTAGGAAGTGTCAGGGACTCTGGAAAGAACACAACGGCCTCACCTGTGAAGAGCTGGCAGAAAAGGATGACATCAAGTACCGGACATCCATTGAAGAAAAAATGACTGCTGCTCGGATTAGAAAATGTCACAAGTGTGGAACTGGCCTCATCAAGTCTGAAGGCTGCAACCGCATGTCTTGCCGCTGTGGTGCCCAGATGTGCTACCTCTGTCGAGTTTCTATCAATGGCTATGACCATTTCTGCCAGCATCCTCGCTCTCCAGGAGCCCCTTGCCAAGAATGTTCCAGGTGCTCCCTGTGGACCGACCCCACTAACAGATGA
Peptide sequence:
MAEGNNKEEVIHLNNFPCHRGKEWMAVREGPITISDSSDEEGIPMLVTPATEQQEDDLDDDVILTEDDSEDEYGGFLDLESGKKEGEAKPGPSSKQTADDIVNPRLEQKVIILGENGLLFPESEPLEVQNQSSEDSETELLSNPGEPAASVDDQLIGEEYWLDHPYFQAPNPQPQERTNQVVPQERHSESEMGPMFFRHDFPEPAFPRPEPQQEGIPGPASPQPAHPLGELEDQQLAIDEDPGPAFPLSGPQEANLANMWEQEAAEVDQDLIPLLVKETEARFPDVASGYVEEIIHLKNYYDLNVLCNFLLENPDYPKREDRLIIHPSSSLLASQDDAKLPKIDFFDYSKLTPLDQRCFIQAADLLMADFKMLSSQDIKWALHELKGHYAITRKAFSDAIKKWQELSPETSGKRKKRKEMNQYSFIDFKFEQGNIKIEKRMFFLENKRRHCRYYDHQALLPAVKQEQEFYEQKIKEMAEHEDFLLALQMNEEQYQKDGQLIECRCCYGEFPFEELTQCADAHLFCKECLIRYAQEAVFGSGKSELSCMEGSCTCSFPTSELEKVLPQTILYKYYERKAEEEVAAAYADELVRCPSCSFPALLDSDVKRFSCPNPRCRKETCRKCQGLWKEHNGLTCEELAEKDDIKYRTSIEEKMTAARIRKCHKCGTGLIKSEGCNRMSCRCGAQMCYLCRVSINGYDHFCQHPRSPGAPCQECSRCSLWTDPTNR
IRESfinder result
IRESfinder score
0.427468848
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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