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mmu_ciEmilin1_378

Basic information of circular RNA
PanCircBase ID:

mmu_ciEmilin1_378

mm39_Chr. Position ID:

chr5|31077561|31077939|+

Gene name:

Emilin1

Transcript:

ENSMUST00000031055.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

7

Exon/intron offsets:

0

Genomic length:

378

Exon/intron sizes in nt:

378

Flanking exon/introns:

chr5:31077561-31077958

Splice length:

378

Other database IDs:

​

​

Human Ortholog IDs:
Mature spliced Sequence:

GTAACTAAAAGGCCGACGGGTGGCCTAGTGAGGTAACGGGTGAAGCTGAGCAGTACTAATGCCTCCTTCACACCTCTGCAGACAAGTACAGCTTTTCACTTGTAATTACAAAGACCTCTATTCTTTCCATGCACTCACACCACAGTTAGGCAAAGAGAGAGTGGGGGAGGGGAGGAGACATCCACACCACACGGATCTTTACTGGGACAGACTCCAGCACACACTCTGCAGCAACTGCTGGAGATGCAGCAGGGGATTCCTACAGTGTACAGTTAGTGGAATAGCAGGGAAAGGACGGGTGGGCCACTCCACAGCCAGGAGTGCTGTACCCACTCTCCGAGAGACCTTCCTTGTCCCAGCCAGCGTCTCCCCTCCTGA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AATAGCAGGGAAAGGACGGG

59.45

CTGCAGAGGTGTGAAGGAGG

60.04

180

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AATAGCAGGGAAAGGACGGG

59.45

CTGCTCAGCTTCACCCGTTA

60.04

152

PCR template sequence:

GAATAGCAGGGAAAGGACGGGTGGGCCACTCCACAGCCAGGAGTGCTGTACCCACTCTCCGAGAGACCTTCCTTGTCCCAGCCAGCGTCTCCCCTCCTGAGTAACTAAAAGGCCGACGGGTGGCCTAGTGAGGTAACGGGTGAAGCTGAGCAGTACTAATGCCTCCTTCACACCTCTGCAGACAAGTACAGCTTTTCACT

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

1

Interacting miRNAs (#binding sites)

mmu-miR-574-5p(1)

siRNAs for circular RNA silencing
Junction sequence

TCTCCCCTCCTGAGTAACTAAAAGGC

siRNA sets

TTTAGTTACTCAGGAGGGG,TTAGTTACTCAGGAGGGGA,TAGTTACTCAGGAGGGGAG

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIEMILIN1_378_ORF_1

0.6576

-0.068219649

0.121453717

324

ORF sequence:

ATGCCTCCTTCACACCTCTGCAGACAAGTACAGCTTTTCACTTGTAATTACAAAGACCTCTATTCTTTCCATGCACTCACACCACAGTTAGGCAAAGAGAGAGTGGGGGAGGGGAGGAGACATCCACACCACACGGATCTTTACTGGGACAGACTCCAGCACACACTCTGCAGCAACTGCTGGAGATGCAGCAGGGGATTCCTACAGTGTACAGTTAGTGGAATAGCAGGGAAAGGACGGGTGGGCCACTCCACAGCCAGGAGTGCTGTACCCACTCTCCGAGAGACCTTCCTTGTCCCAGCCAGCGTCTCCCCTCCTGAGTAA

Peptide sequence:

MPPSHLCRQVQLFTCNYKDLYSFHALTPQLGKERVGEGRRHPHHTDLYWDRLQHTLCSNCWRCSRGFLQCTVSGIAGKGRVGHSTARSAVPTLRETFLVPASVSPPE

IRESfinder result

IRESfinder score

0.65613918

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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