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mmu_circAgps_686

Basic information of circular RNA
PanCircBase ID:

mmu_circAgps_686

mm39_Chr. Position ID:

chr2|75692277|75724501|+

Gene name:

Agps

Transcript:

ENSMUST00000047232.14

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

7

Exon/intron indexes:

8,9,10,11,12,13,14

Exon/intron offsets:

0,4813,6371,15537,26182,29858,32111

Genomic length:

32224

Exon/intron sizes in nt:

8,11,26,10,91,28,52,77,000

Flanking exon/introns:

chr2:75689322-75692277|chr2:75724501-75730525

Splice length:

686

Other database IDs:

circBase: mmu_circ_0010184, CIRCpedia: MMU_CIRCpedia_29163, circAtlas: mmu-Agps_0019

circAtlas: hsa-SCAF8_0001

Human Ortholog IDs:
Mature spliced Sequence:

AACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATTGTACAGGTCATGAACCGGACTCCCTGGAATTCAGCACCGTGGGAGGATGGATATCTACTCGAGCGTCAGGCATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGGAACTCTTGGTGTAATAACAGAAGCTACAATAAAGATCAGACCAACCCCTGAGTACCAGAAGTACGGTTCGGTGGCTTTCCCTAACTTTGAACAAGGTGTAGCCTGTTTAAGAGAAATTGCAAAGCAGAGATGTGCTCCTGCATCTATCCGCCTCATGGACAACCAGCAGTTCCAGTTTGGTCATGCTCTTAAACCTCAGGTCTCTTCTATTTTTACATCATTTTTGGATGGATTAAAAAAGTTTTATATTACAAAGTTTAAAGGATTTGATCCAAATCAAATAAGTGTAGCCACATTACTGTTCGAGGGAGACCGTGAGAAGGTTCTTCAGCACGAAAAACAAGTGTATGACATCGCAGCAAAATTTGG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AGCCACATTACTGTTCGAGGG

60.07

TGTCCTGTTATCCCAGCCTC

58.8

146

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GCCACATTACTGTTCGAGGGA

60.07

TGTCCTGTTATCCCAGCCTC

58.8

145

PCR template sequence:

ATCCAAATCAAATAAGTGTAGCCACATTACTGTTCGAGGGAGACCGTGAGAAGGTTCTTCAGCACGAAAAACAAGTGTATGACATCGCAGCAAAATTTGGAACCGGATTCTCTGGGTTGATGAGAACAATCTGACAGCTCACGTAGAGGCTGGGATAACAGGACAAGATTTGGAAAGACAGCTTAAAGAAAGTGGTTATT

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

NA

Interacting miRNAs (#binding sites)

NA

siRNAs for circular RNA silencing
Junction sequence

CAGCAAAATTTGGAACCGGATTCTCT

siRNA sets

ATCCGGTTCCAAATTTTGC, AATCCGGTTCCAAATTTTG, TCCGGTTCCAAATTTTGCT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCAGPS_686_ORF_1

0.8359

0.04533839

0.605018482

549

ORF sequence:

ATGAAGAAAAATATCTATGGCAATATTGAGGACCTGGTGGTTCATATGAAAATGGTAACACCTAGAGGTGTAATAGAGAAAAGCTCCCAAGGACCTCGTATGTCAACGGGCCCTGATATCCATCACTTCATTATGGGATCTGAAGGAACTCTTGGTGTAATAACAGAAGCTACAATAAAGATCAGACCAACCCCTGAGTACCAGAAGTACGGTTCGGTGGCTTTCCCTAACTTTGAACAAGGTGTAGCCTGTTTAAGAGAAATTGCAAAGCAGAGATGTGCTCCTGCATCTATCCGCCTCATGGACAACCAGCAGTTCCAGTTTGGTCATGCTCTTAAACCTCAGGTCTCTTCTATTTTTACATCATTTTTGGATGGATTAAAAAAGTTTTATATTACAAAGTTTAAAGGATTTGATCCAAATCAAATAAGTGTAGCCACATTACTGTTCGAGGGAGACCGTGAGAAGGTTCTTCAGCACGAAAAACAAGTGTATGACATCGCAGCAAAATTTGGAACCGGATTCTCTGGGTTGATGAGAACAATCTGA

Peptide sequence:

MKKNIYGNIEDLVVHMKMVTPRGVIEKSSQGPRMSTGPDIHHFIMGSEGTLGVITEATIKIRPTPEYQKYGSVAFPNFEQGVACLREIAKQRCAPASIRLMDNQQFQFGHALKPQVSSIFTSFLDGLKKFYITKFKGFDPNQISVATLLFEGDREKVLQHEKQVYDIAAKFGTGFSGLMRTI

IRESfinder result

IRESfinder score

0.618082952

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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