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mmu_circArv1_524

Basic information of circular RNA
PanCircBase ID:

mmu_circArv1_524

mm39_Chr. Position ID:

chr8|125455067|125458680|+

Gene name:

Arv1

Transcript:

ENSMUST00000034463.4

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

3,4,5

Exon/intron offsets:

0,2463,3468

Genomic length:

3613

Exon/intron sizes in nt:

15,42,25,145

Flanking exon/introns:

chr8:125452114-125455067|chr8:125458680-125460545

Splice length:

524

Other database IDs:

circAtlas: hsa-ARV1_0011

Human Ortholog IDs:
Mature spliced Sequence:

ATCCATGGGAAACTCTGCATGTTTTGTTTGCTTTGTGAAGCATACCTGCGGTGGTGGCAGCTGCAGGACTCGAGCCAGAGTCCAGCCCCCGATGACGTGATCCGGTACGCCAAGGAGTGGGACTTCTACAGGATGTTTGTGATCGCTTCTTTCGAACAAGCTGCCTTTCTTACTGGCATATTTGCTTTCCTGTGGGTACAGCAACCCATGACAGCAAAAAGAGCACCCGACTTTGTTCTGCTGCTGAAAGCACTGTTGCTGTCCAGCTACGGGAAGCTCCTGCTAATCCCGGCCGTCATCTGGGAACATGACTACACACCTCTGTGTCTCAGGCTCATTAAAGTGTTTGTCCTGACCTCAAATTTCCAGGCAGTCAGAGTGACCCTGAACACAAACCGGAGGCTCTCCCTGTTGGTCGTGCTAAGTGGCTTACTGCTGGAGAGCATTGTGGTCTTCTTCTTCCAGAGGATGGAGTGGGATGTGAGCAGTGACTGTGCGCTCTACAAGTCTCAGGACTTCTGAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GGATGGAGTGGGATGTGAGC

60.18

GCTGGACTCTGGCTCGAGT

61.35

144

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GGATGGAGTGGGATGTGAGC

60.18

GCTGGACTCTGGCTCGAG

59.51

144

PCR template sequence:

GTGGCTTACTGCTGGAGAGCATTGTGGTCTTCTTCTTCCAGAGGATGGAGTGGGATGTGAGCAGTGACTGTGCGCTCTACAAGTCTCAGGACTTCTGAAGATCCATGGGAAACTCTGCATGTTTTGTTTGCTTTGTGAAGCATACCTGCGGTGGTGGCAGCTGCAGGACTCGAGCCAGAGTCCAGCCCCCGATGACGTGA

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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-15b-5p(1), mmu-miR-149-5p(1), mmu-miR-676-3p(1), mmu-miR-129-5p(1), mmu-miR-350-3p(1)

siRNAs for circular RNA silencing
Junction sequence

AGGACTTCTGAAGATCCATGGGAAAC

siRNA sets

TTTCCCATGGATCTTCAGA,GTTTCCCATGGATCTTCAG

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

NA

NA

NA

NA

NA

ORF sequence:

NA

Peptide sequence:

NA

IRESfinder result

IRESfinder score

0.449698728

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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