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mmu_circBlmh_341

Basic information of circular RNA
PanCircBase ID:

mmu_circBlmh_341

mm39_Chr. Position ID:

chr11|76840785|76843415|+

Gene name:

Blmh

Transcript:

ENSMUST00000021197.10

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

3,4,5

Exon/intron offsets:

0,1084,2541

Genomic length:

2630

Exon/intron sizes in nt:

110,142,89

Flanking exon/introns:

chr11:76837265-76840785|chr11:76843415-76845335

Splice length:

341

Other database IDs:

circAtlas: hsa-BLMH_0012

Human Ortholog IDs:
Mature spliced Sequence:

GACGATGCTGGATCTTTTCTTGTTTGAATGTTATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTTTTGGGACAAGGTTGAACGCTGTTATTTCTTCTTGAATGCTTTTGTGGACACAGCTCAGAAAAAGGAGCCTGAAGATGGGAGACTGGTGCAGTATTTGCTTATGAACCCTACAAATGATGGTGGACAGTGGGATATGCTTGTCAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GCTTTCCCGAATCGCATACG

59.77

ACAGGTAAGATTGACTAAACTCA

55.01

158

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CGCATACGACAGAGGCTACC

60.32

ACAGGTAAGATTGACTAAACTCA

55.01

146

PCR template sequence:

CAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAGGACGATGCTGGATCTTTTCTTGTTTGAATGTTATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTT

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

5

Interacting miRNAs (#binding sites)

mmu-miR-200b-3p(1), mmu-miR-335-5p(1), mmu-miR-25-3p(1), mmu-miR-452-3p(1), mmu-miR-181d-5p(1)

siRNAs for circular RNA silencing
Junction sequence

TCTGAATCACAAGGACGATGCTGGAT

siRNA sets

ATCCAGCATCGTCCTTGTG, ATCGTCCTTGTGATTCAGA, CATCGTCCTTGTGATTCAG

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCBLMH_341_ORF_1

1.042

0.031363497

0.31682917

336

ORF sequence:

ATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTTTTGGGACAAGGTTGAACGCTGTTATTTCTTCTTGAATGCTTTTGTGGACACAGCTCAGAAAAAGGAGCCTGAAGATGGGAGACTGGTGCAGTATTTGCTTATGAACCCTACAAATGATGGTGGACAGTGGGATATGCTTGTCAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAGGACGATGCTGGATCTTTTCTTGTTTGA

Peptide sequence:

MRLPFMKKFNIEEFEFSQSYLFFWDKVERCYFFLNAFVDTAQKKEPEDGRLVQYLLMNPTNDGGQWDMLVNIVEKYGVVPKKCFPESHTTEATRRMNDILNHKDDAGSFLV

IRESfinder result

IRESfinder score

0.73649728

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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