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mmu_ciCd200_2194
Basic information of circular RNA
PanCircBase ID:
mmu_ciCd200_2194
mm39_Chr. Position ID:
chr16|45212761|45214955|-
Gene name:
Cd200
Transcript:
ENSMUST00000163230.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
2194
Exon/intron sizes in nt:
2194
Flanking exon/introns:
chr16:45212751-45214955
Splice length:
2194
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAGAGACTGAGCATGGTAGAGTGTGGTGTGTCTATGTTTATGCACTGGGAAGACGGTAATGATCTTCAGAGACTCTCAACTGCTTAGCAAAGGCCGTAGTTAGAGAGAGCATGGGGCAAGGGGAAAGAGCTTGAGGCAGCAAATACAATAAGTTTTGCTGTAGTCTTCCCATTCACAGAGATGACATAAACCTGCAGAAAGTATGGAACCATATGTTTTACACACACACACACACACACACACACACACATATGCACATGCACACACACATGTACCTATAATTAACTTGGTTCTCAAATTACACATGGTAAGAGATTAAACAATGAAAACCAATTAAGAAAATACAATCACACAGAAATCTACTTTAGTGAACATTTGTATTTAGAATTTCTTTATGGAAAAAGCCATTGAATATAAGTATGGCGTGCAAAAACAAAAACCAAAAAAACAAAAACAAAAAAAAACAACAACAGTCACTATGAAAGTCAAGGCAGTTACTCCATGATTAAGAGAAGGATATCACACACAGTGTCCTTACAAGTGGCAATTCACATCCTTGGTGAGGTGAGATGAGATGACATCAGTTGTTATCCATCACTCACAAAAGCACATGAGCTAAAATGTACGGATTGTGTCTTTCTGAGGTTTCTTTTTCATATTCTTGGACTACACGACAGCTAACCCAAGCTCTAGAAAGTAAAATTGACAGAAAGAGTACGTGGGAAACATATTGCTTACATACCTATGGTTGATATCCATCAATAGAGAAATATTTTCTAGGCAATCACAAAACTGTGTGTCCAGTGAGAAAGCCACAGTAGACCATGAAAATACCTAAGGTAAAGGAGGTGGGGGCCTTCCTCAGTCTGGGGATAAGGAGGTTTCCTGGAGGACCCTATCCACAGCTGTGATAAAATCACTGAATGACCATCACTGAGAAAAGCCCCATCAGAAAGCTCATCAGTCTTTTTAAGAAAAACTGCATTAGCATTTGTTTTTCTAATTTCTCAGATGATTCCTTCCAAATGACTCTCTCTGGGACTCATGGATACACGGTTTGAGAATGGTGTGTGGGTGACTGTAGTGCGCTTGGTTTCAAGCATGGCTTTCTCTCTAGTTTTGAAGCACTAGCCCTGGAAGTAGCACACCATGTAAGCACCTAAAATGGCGGCAGCTGTGTGTGCGCACTTTCCAATAAGTAAAAGCTAGAAGAGGTGTCCGTTTTACCATCTTGTGCAGTGGCCTCTTGCGAGTAGCTCCTACAGACGTGTCTGGCTGAGCTCCTTAAAACCTCAATGCTAGTTAGAAATGGGGTGTTTAGGTAAATTTTGATCAAAAACCCTTGTGTGGTGCATTTGGACTTTCATGAAGAGAGCTTCAGGATCAGTGAAGGCCAAGAGCAAATGTCCTTGAAAAATAAGAACTTGAAAAGGTAAATAAGTTCTTTCCCAGGAATTCTAAGTTTGACTTACGTGACATCAAATGTTTTCTATTGTTTGCACAGCATTTATTTATTCTGTGAATATTTACTGATGATGCAAAAGCCCCATAGGCAGCTGTAGAAAGCATGGAAATGAGACAAACCTGAAGACTTTTGCTTCAGTTTTGAAAAGTCTGCTTCAGAGAAGGTGCTAGAAGTTTCCTCTCCCTTTGTGTTATCTACACCAAGGAGCTGGGGTTTAGCTGGGCTCCACTGAGCACGCCCGGAGGAGATTTAGTAATGAAAGACTGGGAGAAGTGAAGTAGAACAATGAAGGAATTACTTCCAATGGTCGACATCACGGGACACGTGAATTTTTCCCCTGTCTAATTCCCAGTGTATTTAATCTTAAAGAACATGAGATTTGAAGGCAAAAAGATTTGACTAACCCTCAGCTTTTAAATTTTCTATCCTGGTGTTGAGTTCAGCTAGCCTCTCCATTTAGGAGTGGTTTCATTTTTAAGTCTTATACATATGAATAACATTTAACTCCTGGAGAAATCTTATTATTATATGTAACTGCATGAAATATGCTGGCTGTTACTAACATCTAATTGTTTTACAAACCCTATGAGGTCATGACCGTAACTGCGTGTGCACTTAAGGATAATTTTAGAAGAGCTCTCAGTTCTTATAAAAACCCCCTTTTGCTTTTTCACGTTTTGCTTAGCAGACTTCTCTTCTGACTCCCCTTTCTCCTTCTCCCATCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCTTTTGCTTTTTCACGT
59.86
CGGCCTTTGCTAAGCAGTTG
60.11
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCCCTTTTGCTTTTTCACG
59.86
CGGCCTTTGCTAAGCAGTTG
60.11
171
PCR template sequence:
TTTTAGAAGAGCTCTCAGTTCTTATAAAAACCCCCTTTTGCTTTTTCACGTTTTGCTTAGCAGACTTCTCTTCTGACTCCCCTTTCTCCTTCTCCCATCTGTAAGAGAGACTGAGCATGGTAGAGTGTGGTGTGTCTATGTTTATGCACTGGGAAGACGGTAATGATCTTCAGAGACTCTCAACTGCTTAGCAAAGGCCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-1187(3), mmu-miR-466a-5p(2), mmu-miR-466p-5p(2), mmu-miR-129-5p(2), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-19b-3p(1), mmu-miR-106b-5p(1), mmu-miR-19a-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-7a-5p(1), mmu-miR-320-3p(1), mmu-miR-501-3p(1), mmu-miR-483-5p(1), mmu-miR-194-5p(1), mmu-miR-467b-5p(1), mmu-miR-297a-5p(1), mmu-miR-499-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-539-5p(1), mmu-miR-335-3p(1), mmu-miR-484(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTTCTCCCATCTGTAAGAGAGACTG
siRNA sets
NA
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
0.791225738
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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