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mmu_circNcor1_508
Basic information of circular RNA
PanCircBase ID:
mmu_circNcor1_508
mm39_Chr. Position ID:
chr11|62313700|62329341|-
Gene name:
Ncor1
Transcript:
ENSMUST00000018645.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,10688,15463
Genomic length:
15641
Exon/intron sizes in nt:
193,137,178
Flanking exon/introns:
chr11:62310606-62313700|chr11:62329341-62347973
Splice length:
508
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213655, circAtlas: mmu-Ncor1_0021
circBase: hsa_circ_0005069, circAtlas: hsa-NCOR1_0018, CIRCpedia: HSA_CIRCpedia_19425
Human Ortholog IDs:
Mature spliced Sequence:
GTTGCTTCCTAGAAACATGGTTGTTTGTTGGACTTGATCTCACAGCCCAGTGAGGACGTCTTTACTGATAATGTCAAGTTCAGGTTACCCTCCCAACCAAGGAGCTTTCAGCACAGAGCAAAGTCGTTATCCTTCACATTCTGTCCAGTATACCTTTCCCAGTACCCGACACCAGCAGGAATTTGCAGTTCCTGACTACCGCTCTTCTCATATTGAAGTTAGCCAGGCATCACAGCTTTTACAGCAGCAGCAGCAGCAGCAGCAGCTTCGAAGACGACCTTCCTTGCTTTCAGAATTTCACCCGGGTTCTGACAGGCCTCAAGAAAGGAGAACTGGATATGAACAGTTTCACTCAGGACCCTCACCGGTGGATCATGATTCCTTGGAGTCCAAGCGCCCACGCCTGGAGCCAGTTTCTGATGCCCATTTCCAGCGTGTTAGTGCTGCGGTTTTACCTTTAGTTCACTCGCTGCCAGAAGGCTTGAGGTCGTCTGCAGATGCTAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCCATTTCCAGCGTGTTA
60.25
TAAAGACGTCCTCACTGGGC
59.39
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCATTTCCAGCGTGTTAG
59.55
TAAAGACGTCCTCACTGGGC
59.39
151
PCR template sequence:
GCCAGTTTCTGATGCCCATTTCCAGCGTGTTAGTGCTGCGGTTTTACCTTTAGTTCACTCGCTGCCAGAAGGCTTGAGGTCGTCTGCAGATGCTAAGAAGGTTGCTTCCTAGAAACATGGTTGTTTGTTGGACTTGATCTCACAGCCCAGTGAGGACGTCTTTACTGATAATGTCAAGTTCAGGTTACCCTCCCAACCAA
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-320-3p(1), mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-370-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATGCTAAGAAGGTTGCTTCCTAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNCOR1_508_ORF_1
1.1042
0.133905968
0.641388789
450
ORF sequence:
ATGTCAAGTTCAGGTTACCCTCCCAACCAAGGAGCTTTCAGCACAGAGCAAAGTCGTTATCCTTCACATTCTGTCCAGTATACCTTTCCCAGTACCCGACACCAGCAGGAATTTGCAGTTCCTGACTACCGCTCTTCTCATATTGAAGTTAGCCAGGCATCACAGCTTTTACAGCAGCAGCAGCAGCAGCAGCAGCTTCGAAGACGACCTTCCTTGCTTTCAGAATTTCACCCGGGTTCTGACAGGCCTCAAGAAAGGAGAACTGGATATGAACAGTTTCACTCAGGACCCTCACCGGTGGATCATGATTCCTTGGAGTCCAAGCGCCCACGCCTGGAGCCAGTTTCTGATGCCCATTTCCAGCGTGTTAGTGCTGCGGTTTTACCTTTAGTTCACTCGCTGCCAGAAGGCTTGAGGTCGTCTGCAGATGCTAAGAAGGTTGCTTCCTAG
Peptide sequence:
MSSSGYPPNQGAFSTEQSRYPSHSVQYTFPSTRHQQEFAVPDYRSSHIEVSQASQLLQQQQQQQQLRRRPSLLSEFHPGSDRPQERRTGYEQFHSGPSPVDHDSLESKRPRLEPVSDAHFQRVSAAVLPLVHSLPEGLRSSADAKKVAS
IRESfinder result
IRESfinder score
0.746586826
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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