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mmu_circOrc3_395

Basic information of circular RNA
PanCircBase ID:

mmu_circOrc3_395

mm39_Chr. Position ID:

chr4|34584803|34587082|-

Gene name:

Orc3

Transcript:

ENSMUST00000108142.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

13,12,11,10

Exon/intron offsets:

0,769,1640,2145

Genomic length:

2279

Exon/intron sizes in nt:

8,01,17,64,134

Flanking exon/introns:

chr4:34579876-34584803|chr4:34587082-34593060

Splice length:

395

Other database IDs:

CIRCpedia: MMU_CIRCpedia_17383, circAtlas: mmu-Orc3_0007

circBase: hsa_circ_0132593, circAtlas: hsa-ORC3_0005, CIRCpedia: HSA_CIRCpedia_55754

Human Ortholog IDs:
Mature spliced Sequence:

CTTTCTCTACTAGAACATTTTTATTCCCAGCCCCTAAGTGTTCTGTGCTGCGATCTCTCAGAAGCCAAGAAAAGAGTAAATGTTTTCTCAGTTAGTCAATGTGAAAACATCCGCCGCCTTCCTTCATTTAGGAGGTACGTGGAAAACCAGCCTTTGGGAAAGCAAGTGGCACTGCTGACAAATGAGACCTTCTTAAAGGAGAAAACTCAATCATTGCTGGAAGACCTGCATGTTTACCATATCAATTACTTCCTTGTCTTGAGATGTCTTCATAATTTTACCTCTTCTCTTCCCAAGTACCCACTGGGTCGACAGATTAGGGAGCTGTATTGCACATGTTTAGAAAAGAAGATATGGGATTCGGAGGAGTACAAGTCAGCCTTGCAGCTGCTGAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GGGTCGACAGATTAGGGAGC

59.61

GCTTCTGAGAGATCGCAGCA

60.18

155

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GGGTCGACAGATTAGGGAGC

59.61

AGATCGCAGCACAGAACACT

59.68

146

PCR template sequence:

AGTACCCACTGGGTCGACAGATTAGGGAGCTGTATTGCACATGTTTAGAAAAGAAGATATGGGATTCGGAGGAGTACAAGTCAGCCTTGCAGCTGCTGAGCTTTCTCTACTAGAACATTTTTATTCCCAGCCCCTAAGTGTTCTGTGCTGCGATCTCTCAGAAGCCAAGAAAAGAGTAAATGTTTTCTCAGTTAGTCAAT

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

4

Interacting miRNAs (#binding sites)

mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-30d-5p(1)

siRNAs for circular RNA silencing
Junction sequence

TGCAGCTGCTGAGCTTTCTCTACTAG

siRNA sets

CTAGTAGAGAAAGCTCAGC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCORC3_395_ORF_1

0.7243

0.035081938

0.377016917

453

ORF sequence:

ATGTTTAGAAAAGAAGATATGGGATTCGGAGGAGTACAAGTCAGCCTTGCAGCTGCTGAGCTTTCTCTACTAGAACATTTTTATTCCCAGCCCCTAAGTGTTCTGTGCTGCGATCTCTCAGAAGCCAAGAAAAGAGTAAATGTTTTCTCAGTTAGTCAATGTGAAAACATCCGCCGCCTTCCTTCATTTAGGAGGTACGTGGAAAACCAGCCTTTGGGAAAGCAAGTGGCACTGCTGACAAATGAGACCTTCTTAAAGGAGAAAACTCAATCATTGCTGGAAGACCTGCATGTTTACCATATCAATTACTTCCTTGTCTTGAGATGTCTTCATAATTTTACCTCTTCTCTTCCCAAGTACCCACTGGGTCGACAGATTAGGGAGCTGTATTGCACATGTTTAGAAAAGAAGATATGGGATTCGGAGGAGTACAAGTCAGCCTTGCAGCTGCTG

Peptide sequence:

MFRKEDMGFGGVQVSLAAAELSLLEHFYSQPLSVLCCDLSEAKKRVNVFSVSQCENIRRLPSFRRYVENQPLGKQVALLTNETFLKEKTQSLLEDLHVYHINYFLVLRCLHNFTSSLPKYPLGRQIRELYCTCLEKKIWDSEEYKSALQLL

IRESfinder result

IRESfinder score

0.793782887

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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Institute of Life sciences, Bhubaneswar, India

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