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mmu_circFam117b_491
Basic information of circular RNA
PanCircBase ID:
mmu_circFam117b_491
mm39_Chr. Position ID:
chr1|60008112|60014162|+
Gene name:
Fam117b
Transcript:
ENSMUST00000036540.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,6,7
Exon/intron offsets:
0,1532,5929
Genomic length:
6050
Exon/intron sizes in nt:
14,42,26,121
Flanking exon/introns:
chr1:59997594-60008112|chr1:60014162-60020567
Splice length:
491
Other database IDs:
circAtlas: mmu-Fam117b_0003
circBase: hsa_circ_0118701, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39218
Human Ortholog IDs:
Mature spliced Sequence:
GCTCCTGCTCCAAAGAGCACGCTCGTTCCCGCTGGCCCCATCACCAAGTCGTCTGGTTCTCGGTTCCGGAACAGTGTGGAAGGGCTGAATCAGGAGATTGAGATCATAATTAAAGAGACGGGGGAGAAGGAAGAACAGCTGATTCCACAAGATATTCCAGATGGTCATCGTGCGCCTCCGCCCCTCGCACAGAGAAGCAGCAGCACACGAAGCATTGACACACAGACCCCTGGGGGTGCAGACAAGGGAAGCAACAACAGCAGCCGCTCTCAGTCTGTGTCCCCAACATCCTTCCTCACCATCTCTAATGAAGGCAGTGAGGAGAGCCCCTGTTCAGCTGATGATCTGCTTGCGGATCCCAGAGATAAAGAGAATGGAAACAATTCTCCTTTGCCAAAATATGCAACCTCACCAAAACCTAATAACAGTTACATGTTTAAAAGGGAACCTCCAGAGGGCTGTGAAAGGGTCAAAGTCTTTGAGGAATGCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCAGAGGGCTGTGAAAG
60.04
CTCCTGATTCAGCCCTTCCA
59.09
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGAGGGCTGTGAAAGG
60.04
TCTCCTGATTCAGCCCTTCC
58.79
140
PCR template sequence:
TGCCAAAATATGCAACCTCACCAAAACCTAATAACAGTTACATGTTTAAAAGGGAACCTCCAGAGGGCTGTGAAAGGGTCAAAGTCTTTGAGGAATGCTCGCTCCTGCTCCAAAGAGCACGCTCGTTCCCGCTGGCCCCATCACCAAGTCGTCTGGTTCTCGGTTCCGGAACAGTGTGGAAGGGCTGAATCAGGAGATTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-182-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGAGGAATGCTCGCTCCTGCTCCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM117B_491_ORF_1
0.9393
0.278717533
0.767155688
495
ORF sequence:
ATGCTCGCTCCTGCTCCAAAGAGCACGCTCGTTCCCGCTGGCCCCATCACCAAGTCGTCTGGTTCTCGGTTCCGGAACAGTGTGGAAGGGCTGAATCAGGAGATTGAGATCATAATTAAAGAGACGGGGGAGAAGGAAGAACAGCTGATTCCACAAGATATTCCAGATGGTCATCGTGCGCCTCCGCCCCTCGCACAGAGAAGCAGCAGCACACGAAGCATTGACACACAGACCCCTGGGGGTGCAGACAAGGGAAGCAACAACAGCAGCCGCTCTCAGTCTGTGTCCCCAACATCCTTCCTCACCATCTCTAATGAAGGCAGTGAGGAGAGCCCCTGTTCAGCTGATGATCTGCTTGCGGATCCCAGAGATAAAGAGAATGGAAACAATTCTCCTTTGCCAAAATATGCAACCTCACCAAAACCTAATAACAGTTACATGTTTAAAAGGGAACCTCCAGAGGGCTGTGAAAGGGTCAAAGTCTTTGAGGAATGC
Peptide sequence:
MLAPAPKSTLVPAGPITKSSGSRFRNSVEGLNQEIEIIIKETGEKEEQLIPQDIPDGHRAPPPLAQRSSSTRSIDTQTPGGADKGSNNSSRSQSVSPTSFLTISNEGSEESPCSADDLLADPRDKENGNNSPLPKYATSPKPNNSYMFKREPPEGCERVKVFEEC
IRESfinder result
IRESfinder score
0.64260176
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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