top of page

mmu_circActr3_1117

Basic information of circular RNA
PanCircBase ID:

mmu_circActr3_1117

mm39_Chr. Position ID:

chr1|125322804|125346041|-

Gene name:

Actr3

Transcript:

ENSMUST00000027579.17

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

10

Exon/intron indexes:

12,11,10,9,8,7,6,5,4,3

Exon/intron offsets:

0,2039,2384,8325,10777,12224,13452,16196,21188,23181

Genomic length:

23237

Exon/intron sizes in nt:

84,126,93,174,144,108,96,111,125,56

Flanking exon/introns:

chr1:125321827-125322804|chr1:125346041-125363021

Splice length:

1117

Other database IDs:

​

circBase: hsa_circ_0056191, circAtlas: hsa-ACTR3_0018, CIRCpedia: HSA_CIRCpedia_360548

Human Ortholog IDs:
Mature spliced Sequence:

ATATACAAAACTAGGATATGCTGGAAATACAGAGCCACAGTTTATCATCCCATCATGTATTGCCATTAAAGAGTCTGCAAAAGTGGGTGACCAAGCCCAGAGGAGGGTGATGAAAGGCGTGGATGACCTAGACTTCTTCATTGGTGATGAAGCAATAGAAAAGCCCACATATGCAACAAAGTGGCCAATTCGCCATGGTATAGTTGAAGACTGGGACTTAATGGAAAGGTTTATGGAGCAAGTGATTTTTAAATATTTAAGGGCAGAACCTGAAGATCATTACTTTCTTTTGACTGAACCTCCACTGAATACTCCAGAAAACAGGGAATATACTGCTGAAATAATGTTTGAATCCTTCAATGTTCCAGGCTTGTACATTGCTGTGCAGGCTGTTCTTGCCTTAGCTGCATCCTGGACCTCAAGACAAGTAGGAGAGCGGACGCTGACGGGTACAGTAATAGACAGTGGAGACGGAGTCACTCATGTCATTCCTGTGGCTGAAGGATATGTTATCGGCAGCTGTATTAAACACATTCCAATCGCAGGAAGAGATATAACATATTTTATTCAGCAACTGCTGCGAGACCGAGAAGTAGGAATCCCTCCTGAGCAGTCCTTGGAAACTGCGAAAGCAGTGAAGGAACGCTACAGTTATGTCTGCCCAGATTTAGTAAAAGAGTTTAACAAGTATGACACCGATGGGTCAAAGTGGATCAAACAGTACACCGGAGTCAACGCCATCTCAAAGAAAGAGTTTTCTATTGATGTTGGCTATGAGCGATTCCTGGGACCCGAGATCTTTTTCCATCCAGAGTTTGCTAATCCAGATTTTACACAACCTATCTCAGAAGTTGTAGATGAAGTCATTCAGAATTGCCCCATTGATGTCCGGCGTCCTCTCTACAAGAACATTGTCCTCTCTGGTGGTTCAACCATGTTCAGGGACTTTGGACGTCGTTTGCAAAGAGATTTGAAGAGAACTGTAGATGCCAGGCTGAAGTTAAGCGAGGAGCTGAGTGGTGGTAGATTGAAGCCCAAGCCTATTGATGTACAAGTTATTACACACCATATGCAGCGGTATGCAGTCTGGTTTGGAGGGTCAATGCTGGCTTCCACG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CACCATATGCAGCGGTATGC

59.48

GCTTGGTCACCCACTTTTGC

60.25

150

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CACCATATGCAGCGGTATGC

59.48

TGGTCACCCACTTTTGCAGA

59.74

147

PCR template sequence:

TGGTGGTAGATTGAAGCCCAAGCCTATTGATGTACAAGTTATTACACACCATATGCAGCGGTATGCAGTCTGGTTTGGAGGGTCAATGCTGGCTTCCACGATATACAAAACTAGGATATGCTGGAAATACAGAGCCACAGTTTATCATCCCATCATGTATTGCCATTAAAGAGTCTGCAAAAGTGGGTGACCAAGCCCAG

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

9

Interacting miRNAs (#binding sites)

mmu-miR-31-5p(1), mmu-miR-132-3p(1), mmu-miR-326-3p(1), mmu-miR-139-5p(1), mmu-miR-434-3p(1), mmu-miR-541-5p(1), mmu-miR-670-5p(1), mmu-miR-544-5p(1), mmu-miR-338-3p(1)

siRNAs for circular RNA silencing
Junction sequence

GCTGGCTTCCACGATATACAAAACTA

siRNA sets

TTTTGTATATCGTGGAAGC, TTTGTATATCGTGGAAGCC, TAGTTTTGTATATCGTGGA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCACTR3_1117_ORF_1

0.8816

0.123816334

0.995607098

1188

ORF sequence:

ATGTACAAGTTATTACACACCATATGCAGCGGTATGCAGTCTGGTTTGGAGGGTCAATGCTGGCTTCCACGATATACAAAACTAGGATATGCTGGAAATACAGAGCCACAGTTTATCATCCCATCATGTATTGCCATTAAAGAGTCTGCAAAAGTGGGTGACCAAGCCCAGAGGAGGGTGATGAAAGGCGTGGATGACCTAGACTTCTTCATTGGTGATGAAGCAATAGAAAAGCCCACATATGCAACAAAGTGGCCAATTCGCCATGGTATAGTTGAAGACTGGGACTTAATGGAAAGGTTTATGGAGCAAGTGATTTTTAAATATTTAAGGGCAGAACCTGAAGATCATTACTTTCTTTTGACTGAACCTCCACTGAATACTCCAGAAAACAGGGAATATACTGCTGAAATAATGTTTGAATCCTTCAATGTTCCAGGCTTGTACATTGCTGTGCAGGCTGTTCTTGCCTTAGCTGCATCCTGGACCTCAAGACAAGTAGGAGAGCGGACGCTGACGGGTACAGTAATAGACAGTGGAGACGGAGTCACTCATGTCATTCCTGTGGCTGAAGGATATGTTATCGGCAGCTGTATTAAACACATTCCAATCGCAGGAAGAGATATAACATATTTTATTCAGCAACTGCTGCGAGACCGAGAAGTAGGAATCCCTCCTGAGCAGTCCTTGGAAACTGCGAAAGCAGTGAAGGAACGCTACAGTTATGTCTGCCCAGATTTAGTAAAAGAGTTTAACAAGTATGACACCGATGGGTCAAAGTGGATCAAACAGTACACCGGAGTCAACGCCATCTCAAAGAAAGAGTTTTCTATTGATGTTGGCTATGAGCGATTCCTGGGACCCGAGATCTTTTTCCATCCAGAGTTTGCTAATCCAGATTTTACACAACCTATCTCAGAAGTTGTAGATGAAGTCATTCAGAATTGCCCCATTGATGTCCGGCGTCCTCTCTACAAGAACATTGTCCTCTCTGGTGGTTCAACCATGTTCAGGGACTTTGGACGTCGTTTGCAAAGAGATTTGAAGAGAACTGTAGATGCCAGGCTGAAGTTAAGCGAGGAGCTGAGTGGTGGTAGATTGAAGCCCAAGCCTATTGATGTACAAGTTATTACACACCATATGCAGCGGTATGCAGTCTGGTTTGGAGGGTCAATGCTGGCTTCCACG

Peptide sequence:

MYKLLHTICSGMQSGLEGQCWLPRYTKLGYAGNTEPQFIIPSCIAIKESAKVGDQAQRRVMKGVDDLDFFIGDEAIEKPTYATKWPIRHGIVEDWDLMERFMEQVIFKYLRAEPEDHYFLLTEPPLNTPENREYTAEIMFESFNVPGLYIAVQAVLALAASWTSRQVGERTLTGTVIDSGDGVTHVIPVAEGYVIGSCIKHIPIAGRDITYFIQQLLRDREVGIPPEQSLETAKAVKERYSYVCPDLVKEFNKYDTDGSKWIKQYTGVNAISKKEFSIDVGYERFLGPEIFFHPEFANPDFTQPISEVVDEVIQNCPIDVRRPLYKNIVLSGGSTMFRDFGRRLQRDLKRTVDARLKLSEELSGGRLKPKPIDVQVITHHMQRYAVWFGGSMLAST

IRESfinder result

IRESfinder score

0.517358399

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

bottom of page