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mmu_ciCtcf_1156
Basic information of circular RNA
PanCircBase ID:
mmu_ciCtcf_1156
mm39_Chr. Position ID:
chr8|106406891|106408047|+
Gene name:
Ctcf
Transcript:
ENSMUST00000132679.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
1156
Exon/intron sizes in nt:
1156
Flanking exon/introns:
chr8:106406891-106408066
Splice length:
1156
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTGCCTGCCCTGGCTCAGTGAGCATCTCATGTGAGGAAGCAGACTGTGTTTGTGAAGATGGGCACTGAGCTTTGAGAACAAGTGAAGGTCACCACACAGGCACAGATGCTCAGGAAGCCCTGTTTTGTTTGTTTGGTTTGGTTTGGTTTTTTGGTTTTTTGGTTTTTTAAGGAAGTTTTTTTGTTTTTGTTTTGTTTTTTGATTTTGGTTTTTTGTTTTTTTACTGAGAAACATCTGAGGCAGTCTCTAAAAGCCTGTTACAAATGAAAAAGTCTAGAGGAGAAGGGTACTAATGTCCTGCAAGATGGGTGTGCTGTTATTTTGGGAGCGATTATAAAACAACCAAGGTCACAGTCACATGGCAGAGCTGACATGGTTATAAGTAGAAAAGAGCCAGGCTTTCAGGGAATGAAGGGCTGAAGCAACGAATAGACTGAGACAGTTCTGCTGGAGGAACTCAGGCCCCTAAAGCCGGGAGTGCTATTACCAGCCCTAATCCCAACACTTGGGAGGCTGAGGCTGGCCTGGGCTACATGGAAAGAAGAAGGGAAGGGGAAACCATTCAGGTGAAAGGATTGTCCCAGGAGTGTTCCCTTTCTAGCACAGTGCCTGGATGTAGTGGGTCTTAGATCGCCTCAAAGCAGCCTTTTCTTCTCTTTAAATTCAGGGCTTAATCTATAATTATGCTCCCTGAGCGCCATGTCCAAATGTCCATCACAGAACAGGGGGATAACTCTGCATCTAGAACCGCCCAGTCATTTCACCTACACACAACTATTTCAGAGCAGTACAGGGTCAGAAATGTCAACTGCATCATATACTCTGTGAAATACTCCTTGTCATGTGCAGTCTAGGGCTGGATTTTTTTTTCCCTGCCCTGCATTACTATACATCCTAAATACAGAACATAAAGGAAAACTAAAAATGTTAAAGTGGAGGCCTGTGAGGTAAATGTCAGTATTTGGTATCTGACAATTTCTAGCCTTTTGGGATTTTATGTGTGGCCACTTAACGTTCGCAGGGCTGTTTTGTTTCTGCTGACTTGGGCATCACTGCTGAGGCTTTCTTGTTGCTGCATCCCATTCATTGTCAGCATCGGGAACAATGCCTGTGCTCGCTGGGGGCTTTAATGTACGTACCCTTTGTTTTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAGCATCGGGAACAATGC
59.9
TTCTCAAAGCTCAGTGCCCA
59.53
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCTTTCTTGTTGCTGCA
59.33
AGCTCAGTGCCCATCTTCAC
60.04
170
PCR template sequence:
ACTGCTGAGGCTTTCTTGTTGCTGCATCCCATTCATTGTCAGCATCGGGAACAATGCCTGTGCTCGCTGGGGGCTTTAATGTACGTACCCTTTGTTTTGTGTAAGTTGCCTGCCCTGGCTCAGTGAGCATCTCATGTGAGGAAGCAGACTGTGTTTGTGAAGATGGGCACTGAGCTTTGAGAACAAGTGAAGGTCACCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-205-5p(1), mmu-miR-204-5p(1), mmu-miR-217-5p(1), mmu-miR-222-3p(1), mmu-miR-203-3p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-495-3p(1), mmu-miR-214-3p(1), mmu-miR-194-5p(1), mmu-miR-690(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTTTGTTTTGTGTAAGTTGCCTGC
siRNA sets
AACTTACACAAAACAAAGG, CAACTTACACAAAACAAAG, ACTTACACAAAACAAAGGG
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
0.738291157
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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