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mmu_ciNsrp1_811
Basic information of circular RNA
PanCircBase ID:
mmu_ciNsrp1_811
mm39_Chr. Position ID:
chr11|76939287|76940098|-
Gene name:
Nsrp1
Transcript:
ENSMUST00000102494.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
811
Exon/intron sizes in nt:
811
Flanking exon/introns:
chr11:76939287-76940098
Splice length:
811
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGGAGAGTGGGGCACTGCAGTAGACCCCTGCCTGAGCCACCTGCAGTCTCCTACCACTTACACTGTTGTGAGCAGAGTATGTATGTGACTTCAAGATACCATGTATGTGTCAGGATGCAACACAAAAACACAGCTGAACCCTTAAGTCACTGTTATTTCTATTAGGCTTTTCATTTTGTTCTTATTTTATTAAACTATTATCATTATAAGTCATTGTCATTGAAATTCTAAATATAAAGCCATAACATTACATTTGCCAGAAACATATATATATATATATATATATATATATGCTTTAAATTCTCATTACATATTCTGGGATGAAAATATGTTTAACATTAACTGGACAGTTAAAAAAAGAATCTCATTGATAATCAGAGTTAAGACATATTTTACCCATTGAATTTAGTGCTCTCGTGGTCAATTTCTCGAGATCAAAATATGTTGTGAACTTATCAGTAATTTAATTGTCAAATGCTATTCAACTTCAAGTGAAAGAAAACTAAATCTGTAAGGTTGTATCTGGGCCAGAGAGATGATTCAGCAGGGAAAAGAGCTTACCACCAAGTCTGACAGCGAGCTCCATTCCTGGGAACTACGTGATGCCAAGAGAGAACCAACTCCAGTGGGTTCTACATGCATGTAGACAGACAGATCAATTAAAAAAACATTGAAAGGTTATCCCTAACTCCTGGTCTTGAGAGTGTTTGCACATCTTTGTATGATATATGCTCTGCATACATAAGATAAAGCTGTATTGTGCTTCGCTGAATCCGTATTCTCAATTTGCCTTTGCTTTCCTTCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGTATTGTGCTTCGCTGA
58.92
ACATACTCTGCTCACAACAGTGT
59.93
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGTATTGTGCTTCGCTG
58.92
ACATACTCTGCTCACAACAGTGT
59.93
143
PCR template sequence:
TGCACATCTTTGTATGATATATGCTCTGCATACATAAGATAAAGCTGTATTGTGCTTCGCTGAATCCGTATTCTCAATTTGCCTTTGCTTTCCTTCCCAGGTATGGAGAGTGGGGCACTGCAGTAGACCCCTGCCTGAGCCACCTGCAGTCTCCTACCACTTACACTGTTGTGAGCAGAGTATGTATGTGACTTCAAGAT
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-135a-5p(1), mmu-miR-19b-3p(1), mmu-miR-146a-5p(1), mmu-miR-19a-3p(1), mmu-miR-381-3p(1), mmu-miR-297a-5p(1), mmu-miR-466d-3p(1), mmu-miR-539-5p(1), mmu-miR-669d-5p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTCCTTCCCAGGTATGGAGAGTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CINSRP1_811_ORF_1
0.5073
-0.120051624
0.026739726
171
ORF sequence:
ATGCTCTGCATACATAAGATAAAGCTGTATTGTGCTTCGCTGAATCCGTATTCTCAATTTGCCTTTGCTTTCCTTCCCAGGTATGGAGAGTGGGGCACTGCAGTAGACCCCTGCCTGAGCCACCTGCAGTCTCCTACCACTTACACTGTTGTGAGCAGAGTATGTATGTGA
Peptide sequence:
MLCIHKIKLYCASLNPYSQFAFAFLPRYGEWGTAVDPCLSHLQSPTTYTVVSRVCM
IRESfinder result
IRESfinder score
0.866611921
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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