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mmu_ciPhf21a_1374
Basic information of circular RNA
PanCircBase ID:
mmu_ciPhf21a_1374
mm39_Chr. Position ID:
chr2|92044434|92045808|+
Gene name:
Phf21a
Transcript:
ENSMUST00000111294.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1374
Exon/intron sizes in nt:
1374
Flanking exon/introns:
chr2:92044434-92051816
Splice length:
1374
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTATTTTTACAAAGCTCACATAGTGTGCATGATTTTAGCTGGACTCAATCAAATATTAAGTAATTTTGTAAGTGATTTTTTTTTAACCTCCTAAAAAAGCTTCCTTCTTCAAAACAAGGCTTTATAGTTTGCACCAAAAGTGAATTTTTAGCTTCACAGAGCTGTATCTAAAATGCATTTGTATTTCTGATAACCACACTAGACTTGCATGCTCCTGAATTTGATAACCCATTAAAACTCGAAGGTCCTGTTGCCAATAATTGAGTAGTTAGGCCTGAGAATTCAAAGTCAGAAGAGACAAGTTTAGGTGAGGTTTCCACTGTGGCCTGCATTGCTGTGCTGTTCCATTAGAGGCCTCTCTGTGTATTAGCTGGCAGGTCACTGCAGCTGTCCGACCTTCATCTGGAAGTTGAAGCCTCTTGATGTTTGTATTCTTAGGCTTGACATTAGATTGGCTTCAATTCTGAGATTATGTTTTTAGTGTGTGTTGTTTTGTATAATTTTTAAAAGAAGAGAGAAACAAACATGTTTTTTGATCGTTACTTTCATAAACTTTTAAACAGCTTACAACTTATACTTACTCAGATTTTGGATGTCTTAATTCAAGATCCTAGATTGCACTAGATGATCTGGCACCTTAAGCACCTGGCAGATACTAACTTTATTTCAATTGCCTTGAAAAAAATTCAAGCTACAATTGTGTGATTTTCCAGTGTAAAGCTGCTTTTAAAAAAAATCTATCACTCAAATAGTAATAAACTTAGTGGGTAGAATAGGTAGGACAAATTTTTGGTTTGAGTTTTGTTTCTTACAGACAGAGTCTCACTCTATGTAGCCTTAGCTGGCCTACAGCTGGCTGCATAGACTTAGGCTAGCCTTGAATACACAGAGATCTGCCTATTGAGTGCTGAGATTAAAGGCATGCACCACTACCGTGCCCAGTGGAGTTTTGGTTTTGTGGTCCTTCTAGTATCTCTCTTACTTTAGAGACTGGGTTTTGAACATAAAATGGAGACTCTTGAACCAGAGAACCTCAGATCTTGCTACCATTTAATTCTATTGCCTTTCTCTCATGGAACCTTGTAAAGTAAGAATCACGATTCTCTACCTTATGGTCTTATAGAATCATGGAATCTGTCCTAATTGGCAGTTTCTTTGCCTACATCCCTGACTGGTTGTTACTTATTCGGGTGCACATTGAATACTATGTTTTAAAAAAATGTAGGCTTTGTTTTCTGTAATGAATATGTTTTGAGAAATTCTGATTCCACAGAAATTGAGATTGGGTCTGGGGTGGGAAATGGGTTCTGTGGTCAAATAACTTGGGAAATGCTGCATTAAACAAAGTTAAACAGGTCTCTTTACTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGATTGGGTCTGGGGTG
59.3
GTCCAGCTAAAATCATGCACACT
59.56
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGATTGGGTCTGGGGTG
59.3
AGTCCAGCTAAAATCATGCACAC
59.56
143
PCR template sequence:
CAGAAATTGAGATTGGGTCTGGGGTGGGAAATGGGTTCTGTGGTCAAATAACTTGGGAAATGCTGCATTAAACAAAGTTAAACAGGTCTCTTTACTGCAGGTAAGTATTTTTACAAAGCTCACATAGTGTGCATGATTTTAGCTGGACTCAATCAAATATTAAGTAATTTTGTAAGTGATTTTTTTTTAACCTCCTAAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-miR-19a-3p(1), mmu-miR-18a-5p(1), mmu-miR-216a-5p(1), mmu-miR-185-5p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-301b-3p(1), mmu-miR-107-3p(1), mmu-miR-301a-3p(1), mmu-miR-690(1), mmu-miR-377-3p(1), mmu-miR-532-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTTTACTGCAGGTAAGTATTTTTA
siRNA sets
TAAAAATACTTACCTGCAG,ATACTTACCTGCAGTAAAG,AAAATACTTACCTGCAGTA
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
0.923435844
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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