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mmu_circFam172a_480
Basic information of circular RNA
PanCircBase ID:
mmu_circFam172a_480
mm39_Chr. Position ID:
chr13|77973441|78050994|+
Gene name:
Fam172a
Transcript:
ENSMUST00000163257.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,6,7
Exon/intron offsets:
0,9187,77331
Genomic length:
77553
Exon/intron sizes in nt:
6,61,92,222
Flanking exon/introns:
chr13:77910057-77973441|chr13:78050994-78100103
Splice length:
480
Other database IDs:
circAtlas: mmu-Fam172a_0016
circAtlas: hsa-FAM172A_0015, CIRCpedia: HSA_CIRCpedia_368735
Human Ortholog IDs:
Mature spliced Sequence:
ATCATCACAAGATATGTTTATGAGCTCCTGGAAAGTGACTGTAATTTGAAAAAAATCTCTATTCCAGTAGATGCCACTGAGAGTGAACCAAAGAGTTTTATCTTTATGAGTGAGGATGCTTTGACAAATCCACAGAAACTGATGGTTTTAATTCATGGTAGTGGTGTTGTCAGGGCAGGTCAGTGGGCTAGAAGGCTTATTATTAATGAAGATCTGGACAGTGGCACACAGATACCTTTTATTAAGAGAGCTATGGATGAAGGGTATGGAGTCATCGTCCTGAACCCAAATGAAAACTATATAGAAGTGGAAAAGCAGAAAATGCATAAACAGTCATCATCTTCTGATGGTACAGATGAGCCAGCAGGGAAGCGGGAAAGGAGAGATAAGGTCTCCAAGGAAACAAAGAAGCGTCGTGATTTCTATGAGAAGTACCGCAACCCTCAAAAGGAGAAAGAAATGATGCAGTTGTTTATCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAAGTACCGCAACCCTCA
59.39
TTGGTTCACTCTCAGTGGCA
59.16
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGAAGTACCGCAACCCTC
59.39
TTGGTTCACTCTCAGTGGCA
59.16
146
PCR template sequence:
GAGAGATAAGGTCTCCAAGGAAACAAAGAAGCGTCGTGATTTCTATGAGAAGTACCGCAACCCTCAAAAGGAGAAAGAAATGATGCAGTTGTTTATCAGGATCATCACAAGATATGTTTATGAGCTCCTGGAAAGTGACTGTAATTTGAAAAAAATCTCTATTCCAGTAGATGCCACTGAGAGTGAACCAAAGAGTTTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-217-5p(1), mmu-miR-149-5p(1), mmu-miR-680(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGTTTATCAGGATCATCACAAGAT
siRNA sets
ATCTTGTGATGATCCTGAT,GATGATCCTGATAAACAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM172A_480_ORF_1
1.1293
0.189947062
0.977711052
855
ORF sequence:
ATGAGTGAGGATGCTTTGACAAATCCACAGAAACTGATGGTTTTAATTCATGGTAGTGGTGTTGTCAGGGCAGGTCAGTGGGCTAGAAGGCTTATTATTAATGAAGATCTGGACAGTGGCACACAGATACCTTTTATTAAGAGAGCTATGGATGAAGGGTATGGAGTCATCGTCCTGAACCCAAATGAAAACTATATAGAAGTGGAAAAGCAGAAAATGCATAAACAGTCATCATCTTCTGATGGTACAGATGAGCCAGCAGGGAAGCGGGAAAGGAGAGATAAGGTCTCCAAGGAAACAAAGAAGCGTCGTGATTTCTATGAGAAGTACCGCAACCCTCAAAAGGAGAAAGAAATGATGCAGTTGTTTATCAGGATCATCACAAGATATGTTTATGAGCTCCTGGAAAGTGACTGTAATTTGAAAAAAATCTCTATTCCAGTAGATGCCACTGAGAGTGAACCAAAGAGTTTTATCTTTATGAGTGAGGATGCTTTGACAAATCCACAGAAACTGATGGTTTTAATTCATGGTAGTGGTGTTGTCAGGGCAGGTCAGTGGGCTAGAAGGCTTATTATTAATGAAGATCTGGACAGTGGCACACAGATACCTTTTATTAAGAGAGCTATGGATGAAGGGTATGGAGTCATCGTCCTGAACCCAAATGAAAACTATATAGAAGTGGAAAAGCAGAAAATGCATAAACAGTCATCATCTTCTGATGGTACAGATGAGCCAGCAGGGAAGCGGGAAAGGAGAGATAAGGTCTCCAAGGAAACAAAGAAGCGTCGTGATTTCTATGAGAAGTACCGCAACCCTCAAAAGGAGAAAGAAATGATGCAGTTGTTTATCAGG
Peptide sequence:
MSEDALTNPQKLMVLIHGSGVVRAGQWARRLIINEDLDSGTQIPFIKRAMDEGYGVIVLNPNENYIEVEKQKMHKQSSSSDGTDEPAGKRERRDKVSKETKKRRDFYEKYRNPQKEKEMMQLFIRIITRYVYELLESDCNLKKISIPVDATESEPKSFIFMSEDALTNPQKLMVLIHGSGVVRAGQWARRLIINEDLDSGTQIPFIKRAMDEGYGVIVLNPNENYIEVEKQKMHKQSSSSDGTDEPAGKRERRDKVSKETKKRRDFYEKYRNPQKEKEMMQLFIR
IRESfinder result
IRESfinder score
0.635115988
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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