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mmu_circFam185a_480
Basic information of circular RNA
PanCircBase ID:
mmu_circFam185a_480
mm39_Chr. Position ID:
chr5|21634721|21660875|+
Gene name:
Fam185a
Transcript:
ENSMUST00000056045.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,3967,8976,17592,26058
Genomic length:
26154
Exon/intron sizes in nt:
110,93,139,42,96
Flanking exon/introns:
chr5:21630574-21634721|chr5:21660875-21664156
Splice length:
480
Other database IDs:
circAtlas: mmu-Fam185a_0010
circAtlas: hsa-RP11-467H10_0008, CIRCpedia: HSA_CIRCpedia_373701
Human Ortholog IDs:
Mature spliced Sequence:
ATTTGAGTATTGAGTCATCAGGATCTGGCTCTGTGAAGGTGCAGAATATTGAATGTGATAGCTGTAAAATCGACACTGAGCAGGGGACCAGCATCCTGCAGTCTGTGAAGAGTCAAAAGTTGCATGTTCAAACCAAAGGAGGCGATGTGATCTGTTGTGGAACGGTTTACGGAAATATAGATATTCATGCATCGGATAAAAGTACTGTGAGCATAGAGAAACTTCAGGGAAGTTGTGTTAATATATCTACGGAGGATGGTTTGCTTCAAGCCAAGTATCTTTATACAGAATCTTCCTTTCTGTCTTCTGCTGCTGGGAATATTGCACTAGGAAATGTTCATGGAAATATCATCTTACAAAGCAAGATGGGTAACATAACAGTGGATTCGTCCTGTGGATGTCTAAAAGCCTCCAGTCATCAGGGTGCCATAGATGTGTATGTCAGTCAGCTGGGGGAAGTGGCACTGACAACAGAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCCTCCAGTCATCAGGGT
60.55
CCCCTGCTCAGTGTCGATTT
60.04
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGCCTCCAGTCATCAGGG
59.38
CCCCTGCTCAGTGTCGATTT
60.04
162
PCR template sequence:
GTGGATTCGTCCTGTGGATGTCTAAAAGCCTCCAGTCATCAGGGTGCCATAGATGTGTATGTCAGTCAGCTGGGGGAAGTGGCACTGACAACAGAAGAAGATTTGAGTATTGAGTCATCAGGATCTGGCTCTGTGAAGGTGCAGAATATTGAATGTGATAGCTGTAAAATCGACACTGAGCAGGGGACCAGCATCCTGCA
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-9-5p(1), mmu-miR-101a-3p(1), mmu-miR-130a-3p(1), mmu-miR-214-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-384-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAACAGAAGAAGATTTGAGTATTGA
siRNA sets
TACTCAAATCTTCTTCTGT, AATACTCAAATCTTCTTCT, CAATACTCAAATCTTCTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM185A_480_ORF_1
0.9669
0.103607563
0.776023266
594
ORF sequence:
ATGGGTAACATAACAGTGGATTCGTCCTGTGGATGTCTAAAAGCCTCCAGTCATCAGGGTGCCATAGATGTGTATGTCAGTCAGCTGGGGGAAGTGGCACTGACAACAGAAGAAGATTTGAGTATTGAGTCATCAGGATCTGGCTCTGTGAAGGTGCAGAATATTGAATGTGATAGCTGTAAAATCGACACTGAGCAGGGGACCAGCATCCTGCAGTCTGTGAAGAGTCAAAAGTTGCATGTTCAAACCAAAGGAGGCGATGTGATCTGTTGTGGAACGGTTTACGGAAATATAGATATTCATGCATCGGATAAAAGTACTGTGAGCATAGAGAAACTTCAGGGAAGTTGTGTTAATATATCTACGGAGGATGGTTTGCTTCAAGCCAAGTATCTTTATACAGAATCTTCCTTTCTGTCTTCTGCTGCTGGGAATATTGCACTAGGAAATGTTCATGGAAATATCATCTTACAAAGCAAGATGGGTAACATAACAGTGGATTCGTCCTGTGGATGTCTAAAAGCCTCCAGTCATCAGGGTGCCATAGATGTGTATGTCAGTCAGCTGGGGGAAGTGGCACTGACAACAGAAGAA
Peptide sequence:
MGNITVDSSCGCLKASSHQGAIDVYVSQLGEVALTTEEDLSIESSGSGSVKVQNIECDSCKIDTEQGTSILQSVKSQKLHVQTKGGDVICCGTVYGNIDIHASDKSTVSIEKLQGSCVNISTEDGLLQAKYLYTESSFLSSAAGNIALGNVHGNIILQSKMGNITVDSSCGCLKASSHQGAIDVYVSQLGEVALTTEE
IRESfinder result
IRESfinder score
0.545921896
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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