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mmu_ciSlc9a8_2183
Basic information of circular RNA
PanCircBase ID:
mmu_ciSlc9a8_2183
mm39_Chr. Position ID:
chr2|167299385|167301568|+
Gene name:
Slc9a8
Transcript:
ENSMUST00000109218.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
2183
Exon/intron sizes in nt:
2183
Flanking exon/introns:
chr2:167299385-167301580
Splice length:
2183
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATATCCTTTTAGACGAGAGCACAGGGCGCAGGGATCACACTTGATGGCATCACTCTTGCTTTTTTCTCTGCTTCCTCAGGGACCCAATTTTGTGTGTTTGTGTGCGTGTGTGTGTGTGTGTGTGTGTGCGCATGTGTGTGTGTGTGCGTGTGCATGTGTGTGTGCATGTGTGCGTGTGTGTGTGTGTGCATGTGTGTGTGTGTTTTCCAAGACAGAGCTTCTCCACGTAACCCTGGTTGTCCTGAAACTCTTTGTAGACTAGGCTGGCATGAGCTCATAGAGATCTGCCTGCCTCTGCATCCTGAGTGCTGAAATTAAAGGCATGAGCCACCACCACCACCCAGCTCAAGGACCCAATTTTAATGTATGGTTTTGTTTAAAAGAAGGTTTTGTGCTGAGCTGTGTGGTTTGAGAAATGTTCTAAGCACAAGGACTCTTAAATTTAACCTCTGAAGTGTTACATTTCTCATCAAGACAGCAGGGTCCCTTCAGCTGGCTTTGAGCTTGGTATCCTACAGCTCACAGACTTGCCCAGCAACAGCACACTCTAGGGTGCCATCTCTCTTTCCCTCTCCTTCCCTCCTTCCCTCCCTCCCTCCCTCCCTCCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCTTTCTTTCTTTCTTTGCCTCATCTCACAAATGGATCCAATTTTTCCTGCCTCCTGAGTGCTAGGAGAGTGGCAAGGATGCCATGTTCAAAGGCACACTGTTAGGTGGCAGGGTTGACCTGGCCTCTGCTGCCGAGATGAGAACCATGTGCAGATGACGCCATTCCATCGCTGACCTGGTTTTCACATCCAGAAAATTGGGAATTTTCTTAGAAACTATTTTAGATTTAATTCCGTGTCCACGGAGGCCATGGGGAAGCTGGGTGTGGTGGACACAGCTTTAGACCCTTTCATCTCTGTGAATTAAGTTCCAGGACAGCCAAGGTTATGTAGTGAGTTGCCTGTCGTGGGTGCTAGGATCTGAGCTCAGTGGTCTGGCTCTTACCCACACAGTCAGCTCTGAAAGCTCCTCCCCTCCGTCCCCCATGAGAACGTCTCTGGAAGGATGGGAAGGGCTCTCAGGGAGGTTGTCACACTGCTTATAGTGTGTGTGCTGCTAAAGCAGTGTGACCCTTACTGCTGTGACAGTTTATCACATAGAAGTAGGACAAGCTTCAGAGCTGTTCTGCAGCGTTCCGGCCCATGTCCCCAAAATGACTCCATGGCCCTTCTGGCACAGCTTGTCTCTCACTCAGCTGGGACACTGTTGCCTGGTTCCAGATATGCTTCCTGCCATTCTCCTCTGGCCGCAGGCTGAAGGCATGGAGTCAGTCCACAGCAGCTGTCCCAACATTAGAGTGGGGAAGACACTCAATGTGACATTCCCCAGACTTCAGGTCAGCAGTTAAGAGCACTGTCTGAATTAGAGAGGACCCAGATTAAGTTCCCTGTACCCACATGATGGCTCACACCCACATGAAACTCAGGTCGACCTCTGTGGGCACTGGGCATATGTGGTACAGGGCATGTAGGCAAACTGCTCACACTCATAAAAAACATGTCAGAGATAGAAGTGCATGCCTGTAACCCTAGCAATTGGGAGACCAAGGCAGGATTCCACAAGTTTGAGGTCAGCAGGGACACATAGCAAGATCCTGTCTGAGAGAGAGGCAAAATGTATGTGGTGGAGGGTGCCCCACCCCCCACCTCCACAAAGAAGGAAAGAGGCAGCAGAAGCATGGGGAAGGGCATATGCTACAGTCCATGATGCTGGGAAACTTGGCTGCCTTCAAGGAGCATGCATTGTAATGAGGCAGGGACGTGGAAACTCAGCTCTAGTTGGGGCCTGGGAATGTGCGCTCTCTGTTCCCAGGGCAGGGGCATGAATATGGTGTTGTGAAGGGACAGGAAAGACAGGCTATTGAGCAGGGTGGTGAGTCCCTGAGAGCAGACCTGTGCCTGCAGCCCCAGTCTCAGAGTCAGCATTTCTGAATGTCTTGTCCGATTCTCATTTCTACAAAGAGAACGCTTACTGAGAAATGCCCACTGTAACCACGCCCCAGTCAGCATCATTTTTGGCACCCCTCTCCCACCCCATTGCTTTGCCACATGCCTATCCAGTGCCCTTCATCCTTTCTCCTTGACACCTGGCCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATTGCTTTGCCACATGCCT
60.04
AATTGGGTCCCTGAGGAAGC
59.67
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTCCCACCCCATTGCTTT
59.96
AATTGGGTCCCTGAGGAAGC
59.67
160
PCR template sequence:
CGCCCCAGTCAGCATCATTTTTGGCACCCCTCTCCCACCCCATTGCTTTGCCACATGCCTATCCAGTGCCCTTCATCCTTTCTCCTTGACACCTGGCCATATATCCTTTTAGACGAGAGCACAGGGCGCAGGGATCACACTTGATGGCATCACTCTTGCTTTTTTCTCTGCTTCCTCAGGGACCCAATTTTGTGTGTTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
35
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(3), mmu-miR-466b-3p(3), mmu-miR-298-5p(2), mmu-miR-143-3p(2), mmu-miR-351-5p(2), mmu-miR-532-5p(2), mmu-miR-574-5p(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-206-3p(1), mmu-miR-181a-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-122-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-320-3p(1), mmu-miR-125b-5p(1), mmu-miR-23a-3p(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-125a-5p(1), mmu-miR-411-3p(1), mmu-miR-370-3p(1), mmu-miR-183-5p(1), mmu-miR-34b-5p(1), mmu-miR-342-5p(1), mmu-miR-705(1), mmu-miR-1198-5p(1), mmu-miR-190b-5p(1), mmu-miR-3087-3p(1), mmu-miR-1904(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACACCTGGCCATATATCCTTTTAGA
siRNA sets
TCTAAAAGGATATATGGCC,AAAAGGATATATGGCCAGG,AAAGGATATATGGCCAGGT
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
0.729875744
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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