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mmu_circActr10_401

Basic information of circular RNA
PanCircBase ID:

mmu_circActr10_401

mm39_Chr. Position ID:

chr12|70990182|71001428|+

Gene name:

Actr10

Transcript:

ENSMUST00000021479.6

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

5

Exon/intron indexes:

4,5,6,7,8

Exon/intron offsets:

0,4043,6295,9541,11210

Genomic length:

11246

Exon/intron sizes in nt:

109,108,68,80,36

Flanking exon/introns:

chr12:70989115-70990182|chr12:71001428-71003046

Splice length:

401

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GCATCTGTTGGTGAATCCCAGAGACCGCCGCGTTGTGGTTATCGAGTCGGTGTTATGTCCTTCCCACTTCAGAGAGACTCTGACTCGTGTTCTTTTTAAATATTTTGAGGTTCCATCTGTCCTACTTGCTCCAAGTCATCTGATGGCACTGCTGACGCTTGGAATTAATTCGGCCATGGTCCTGGATTGTGGATATAGGGAAAGCCTGGTGTTGCCTATCTATGAAGGCATCCCAATACTGAATTGCTGGGGAGCACTGCCGTTAGGAGGAAAAGCTCTCCACAAGGAGTTGGAAACTCAGCTGTTGGAACAATGTACTGTTGACACTGGTGCAGCTAAAGGACAGAGCCTTCCCTCAGTGATGGGTTCAGTTCCAGAAGGTGTGCTAGAAGATATTAAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGTTGACACTGGTGCAGCTA

59.53

TGGGAAGGACATAACACCGAC

59.72

149

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TGTTGACACTGGTGCAGCTA

59.53

GTGGGAAGGACATAACACCGA

59.72

150

PCR template sequence:

CTGTTGGAACAATGTACTGTTGACACTGGTGCAGCTAAAGGACAGAGCCTTCCCTCAGTGATGGGTTCAGTTCCAGAAGGTGTGCTAGAAGATATTAAAGGCATCTGTTGGTGAATCCCAGAGACCGCCGCGTTGTGGTTATCGAGTCGGTGTTATGTCCTTCCCACTTCAGAGAGACTCTGACTCGTGTTCTTTTTAAA

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

7

Interacting miRNAs (#binding sites)

mmu-miR-34c-5p(2), mmu-miR-34a-5p(2), mmu-miR-34b-5p(2), mmu-miR-200a-3p(1), mmu-miR-199a-5p(1), mmu-miR-101a-3p(1), mmu-miR-532-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GAAGATATTAAAGGCATCTGTTGGTG

siRNA sets

AACAGATGCCTTTAATATC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCACTR10_401_ORF_1

0.8769

0.073559303

0.204185239

273

ORF sequence:

ATGGCACTGCTGACGCTTGGAATTAATTCGGCCATGGTCCTGGATTGTGGATATAGGGAAAGCCTGGTGTTGCCTATCTATGAAGGCATCCCAATACTGAATTGCTGGGGAGCACTGCCGTTAGGAGGAAAAGCTCTCCACAAGGAGTTGGAAACTCAGCTGTTGGAACAATGTACTGTTGACACTGGTGCAGCTAAAGGACAGAGCCTTCCCTCAGTGATGGGTTCAGTTCCAGAAGGTGTGCTAGAAGATATTAAAGGCATCTGTTGGTGA

Peptide sequence:

MALLTLGINSAMVLDCGYRESLVLPIYEGIPILNCWGALPLGGKALHKELETQLLEQCTVDTGAAKGQSLPSVMGSVPEGVLEDIKGICW

IRESfinder result

IRESfinder score

0.56138167

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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