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mmu_circFam117b_847
Basic information of circular RNA
PanCircBase ID:
mmu_circFam117b_847
mm39_Chr. Position ID:
chr1|59988211|60014162|+
Gene name:
Fam117b
Transcript:
ENSMUST00000036540.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,3882,9269,19901,21433,25830
Genomic length:
25951
Exon/intron sizes in nt:
15,29,01,14,14,42,26,100
Flanking exon/introns:
chr1:59952911-59988211|chr1:60014162-60020567
Splice length:
847
Other database IDs:
circBase: mmu_circ_0008837, CIRCpedia: MMU_CIRCpedia_24735, circAtlas: mmu-Fam117b_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_122835
Human Ortholog IDs:
Mature spliced Sequence:
GTGACAAAACACACCCGCCTTCCTCAAGCTCCTCCAGCATTATCCGACGCACATCTTCCCTGGATACCCTCGCAGCTCCATACCTTGCTGGGCACTGGCCCCGAGACATTCGTGGGCAAGCCGCACCCTGCATGAGGGACAAGGCCACACAGACCGAGAGTGCATGGGCTGAAGAATATGAAAAGAAGAAAGGGTCTCATAAGCGCTCATCATCCTGGGGCAGCACAGAACAGCTTAAAGAGATTGCAAAATTACGCCAGCAACTGCAGAGAAGCAAACACAGCAGTCGTCACCACCGAGATAAAGAAAGGCAGTCTCCATTCCATGGCAACCATGCAGCTATTAACCAGAGCCAGGCTCCTGCTCCAAAGAGCACGCTCGTTCCCGCTGGCCCCATCACCAAGTCGTCTGGTTCTCGGTTCCGGAACAGTGTGGAAGGGCTGAATCAGGAGATTGAGATCATAATTAAAGAGACGGGGGAGAAGGAAGAACAGCTGATTCCACAAGATATTCCAGATGGTCATCGTGCGCCTCCGCCCCTCGCACAGAGAAGCAGCAGCACACGAAGCATTGACACACAGACCCCTGGGGGTGCAGACAAGGGAAGCAACAACAGCAGCCGCTCTCAGTCTGTGTCCCCAACATCCTTCCTCACCATCTCTAATGAAGGCAGTGAGGAGAGCCCCTGTTCAGCTGATGATCTGCTTGCGGATCCCAGAGATAAAGAGAATGGAAACAATTCTCCTTTGCCAAAATATGCAACCTCACCAAAACCTAATAACAGTTACATGTTTAAAAGGGAACCTCCAGAGGGCTGTGAAAGGGTCAAAGTCTTTGAGGAATGCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGAGGGCTGTGAAAGG
60.04
CAGTGCCCAGCAAGGTATGG
61.03
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGAGGGCTGTGAAAGG
60.04
CCAGTGCCCAGCAAGGTATG
61.03
141
PCR template sequence:
TGCCAAAATATGCAACCTCACCAAAACCTAATAACAGTTACATGTTTAAAAGGGAACCTCCAGAGGGCTGTGAAAGGGTCAAAGTCTTTGAGGAATGCTCGTGACAAAACACACCCGCCTTCCTCAAGCTCCTCCAGCATTATCCGACGCACATCTTCCCTGGATACCCTCGCAGCTCCATACCTTGCTGGGCACTGGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-9-5p(1), mmu-miR-298-5p(1), mmu-miR-182-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGAGGAATGCTCGTGACAAAACACA
siRNA sets
TTTTGTCACGAGCATTCCT, TTTGTCACGAGCATTCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM117B_847_ORF_1
0.7351
0.1786089
0.995037904
1176
ORF sequence:
ATGGTCATCGTGCGCCTCCGCCCCTCGCACAGAGAAGCAGCAGCACACGAAGCATTGACACACAGACCCCTGGGGGTGCAGACAAGGGAAGCAACAACAGCAGCCGCTCTCAGTCTGTGTCCCCAACATCCTTCCTCACCATCTCTAATGAAGGCAGTGAGGAGAGCCCCTGTTCAGCTGATGATCTGCTTGCGGATCCCAGAGATAAAGAGAATGGAAACAATTCTCCTTTGCCAAAATATGCAACCTCACCAAAACCTAATAACAGTTACATGTTTAAAAGGGAACCTCCAGAGGGCTGTGAAAGGGTCAAAGTCTTTGAGGAATGCTCGTGACAAAACACACCCGCCTTCCTCAAGCTCCTCCAGCATTATCCGACGCACATCTTCCCTGGATACCCTCGCAGCTCCATACCTTGCTGGGCACTGGCCCCGAGACATTCGTGGGCAAGCCGCACCCTGCATGAGGGACAAGGCCACACAGACCGAGAGTGCATGGGCTGAAGAATATGAAAAGAAGAAAGGGTCTCATAAGCGCTCATCATCCTGGGGCAGCACAGAACAGCTTAAAGAGATTGCAAAATTACGCCAGCAACTGCAGAGAAGCAAACACAGCAGTCGTCACCACCGAGATAAAGAAAGGCAGTCTCCATTCCATGGCAACCATGCAGCTATTAACCAGAGCCAGGCTCCTGCTCCAAAGAGCACGCTCGTTCCCGCTGGCCCCATCACCAAGTCGTCTGGTTCTCGGTTCCGGAACAGTGTGGAAGGGCTGAATCAGGAGATTGAGATCATAATTAAAGAGACGGGGGAGAAGGAAGAACAGCTGATTCCACAAGATATTCCAGATGGTCATCGTGCGCCTCCGCCCCTCGCACAGAGAAGCAGCAGCACACGAAGCATTGACACACAGACCCCTGGGGGTGCAGACAAGGGAAGCAACAACAGCAGCCGCTCTCAGTCTGTGTCCCCAACATCCTTCCTCACCATCTCTAATGAAGGCAGTGAGGAGAGCCCCTGTTCAGCTGATGATCTGCTTGCGGATCCCAGAGATAAAGAGAATGGAAACAATTCTCCTTTGCCAAAATATGCAACCTCACCAAAACCTAATAACAGTTACATGTTTAAAAGGGAACCTCCAGAGGGCTGTGAAAGGGTCAAAGTCTTTGAGGAATGC
Peptide sequence:
MVIVRLRPSHREAAAHEALTHRPLGVQTREATTAAALSLCPQHPSSPSLMKAVRRAPVQLMICLRIPEIKRMETILLCQNMQPHQNLITVTCLKGNLQRAVKGSKSLRNARDKTHPPSSSSSSIIRRTSSLDTLAAPYLAGHWPRDIRGQAAPCMRDKATQTESAWAEEYEKKKGSHKRSSSWGSTEQLKEIAKLRQQLQRSKHSSRHHRDKERQSPFHGNHAAINQSQAPAPKSTLVPAGPITKSSGSRFRNSVEGLNQEIEIIIKETGEKEEQLIPQDIPDGHRAPPPLAQRSSSTRSIDTQTPGGADKGSNNSSRSQSVSPTSFLTISNEGSEESPCSADDLLADPRDKENGNNSPLPKYATSPKPNNSYMFKREPPEGCERVKVFEEC
IRESfinder result
IRESfinder score
0.547196714
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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