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mmu_ciFam193a_903
Basic information of circular RNA
PanCircBase ID:
mmu_ciFam193a_903
mm39_Chr. Position ID:
chr5|34601102|34602005|+
Gene name:
Fam193a
Transcript:
ENSMUST00000180376.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
903
Exon/intron sizes in nt:
903
Flanking exon/introns:
chr5:34601102-34602005
Splice length:
903
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGATCTTCTGTTTCATGTTTCTCTGTTTTCCCAAAGATCTCTTCCTTGGTGTATGTTTTCTATAAAAAGTAAATTATGTTAATTTCAGCAGTTTCTGAAGATTAGTACTGTAGAGAAACAAGCATACTTATAGAACTCATATTTTAATCTTTTCTTTTCTTTTTTTTTTTTTTTGCTGAGATCTGTAATTGTTATCAGTTTTATAGCAACCTCTTATACCTAATATGTACTCCTTTTGGCGCTCTTCTGGACACTGAGCAGGGCTTCTTTACTTCTATGCGTTCTGCATTCTGCTTCCTGCATTAGAACTAGGACAAGGAAAGGCCTTGGCAGGAAGTTCAGATTCTTCCTGTTCTTCTTTGAAGTTCTGGCTATCTTAAAATAAAGACTTCACAGTATTTGGCTTTGGCTGAGTTCTAGAGCCTGAAGTGTTATTTTGTCGTCTGTGTTTACTTTCACATTTGCTTTGGTAAAGAAGTATCACTGGTCATTCTGACCAGCCAGCATCCTGTCTACATTTCATAGTGAAGGTATCATTGCAGCTGTTGATTGAACAGTAGGACCCCAGCAGACGCCACTCAGTGGTCCTGGTTTTTTTGGTGCCATTTTTCCTGTAGCTTCATCCTTCTATTATCTTTATGGGGTCCTTTATTCCTATTCACTTGGGTCCCTGATCAGTGGCTGCTGCCTCTGCAAATACCCATATAAAGTGAGGCTCAGCTCTCTCCTCTGCAGCCTTCCTTATTACCAGCTCTGACATCTGTACCTTCTCCTGTGAGGTCTCTGGTTATCTCAGGTCTGTATCTTTGTGTTCGTTCTATATTATCTGACTGACTGCAGCTTAATTTATGCCATTCTTTGTTCTACATTATACAAGTACTTCTTTTTCTGTCCTTTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTGACTGACTGCAGCTTA
56.27
AGAAAACATACACCAAGGAAGAGA
57.81
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATCTGACTGACTGCAGCTT
56.27
AGAAAACATACACCAAGGAAGAGA
57.81
141
PCR template sequence:
GTATCTTTGTGTTCGTTCTATATTATCTGACTGACTGCAGCTTAATTTATGCCATTCTTTGTTCTACATTATACAAGTACTTCTTTTTCTGTCCTTTTAGGTAGGATCTTCTGTTTCATGTTTCTCTGTTTTCCCAAAGATCTCTTCCTTGGTGTATGTTTTCTATAAAAAGTAAATTATGTTAATTTCAGCAGTTTCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(2), mmu-miR-494-3p(2), mmu-miR-429-3p(1), mmu-miR-30e-5p(1), mmu-miR-200c-3p(1), mmu-miR-30a-5p(1), mmu-miR-101b-3p(1), mmu-miR-203-3p(1), mmu-miR-30d-5p(1), mmu-miR-183-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGTCCTTTTAGGTAGGATCTTCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIFAM193A_903_ORF_1
0.6848
-0.632738852
0.003227363
120
ORF sequence:
ATGCCATTCTTTGTTCTACATTATACAAGTACTTCTTTTTCTGTCCTTTTAGGTAGGATCTTCTGTTTCATGTTTCTCTGTTTTCCCAAAGATCTCTTCCTTGGTGTATGTTTTCTATAA
Peptide sequence:
MPFFVLHYTSTSFSVLLGRIFCFMFLCFPKDLFLGVCFL
IRESfinder result
IRESfinder score
0.964000163
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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