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mmu_circCamsap1_379

Basic information of circular RNA
PanCircBase ID:

mmu_circCamsap1_379

mm39_Chr. Position ID:

chr2|25834953|25842831|-

Gene name:

Camsap1

Transcript:

ENSMUST00000091268.11

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

7,6,5

Exon/intron offsets:

0,192,7736

Genomic length:

7878

Exon/intron sizes in nt:

9,71,40,142

Flanking exon/introns:

chr2:25834615-25834953|chr2:25842831-25846258

Splice length:

379

Other database IDs:

circBase: hsa_circ_0089487, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_63390

Human Ortholog IDs:
Mature spliced Sequence:

GTCCGTTATCGGCGAGAGCACCTCTCTGCTAGGCAGTCACCCTACTTCCCGTTGTTGGAGGACTTGATGAGAGACGGCAGTGATGGCGCTGCTCTCTTAGCAGTGGTTCACTATTATTGCCCAGAGCAGATGAAACTGGATGATATCTGTCTGAAGGAGGTGCCATCAATGGCTGACAGCCTCTATAACATCCGCCTTCTGAGGGAGTTTTCCAACGAGCATCTGAACAAGTGTTTCTATCTCACGCTGGAGGATATGCTGTATGCCCCCCTAGTGCTGAAGCCGAACGTTATGGTTTTTATCGCTGAGCTCTTCTGGTGGTTTGAGAACGTCAAACCAGATTTTGTTCAGCCCCGAGATATTCAAGAGCTGAAGGATG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GCTGAGCTCTTCTGGTGGTT

59.96

CTAAGAGAGCAGCGCCATCA

59.9

176

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GCTGAGCTCTTCTGGTGGTT

59.96

CAAGTCCTCCAACAACGGGA

59.89

142

PCR template sequence:

AAGCCGAACGTTATGGTTTTTATCGCTGAGCTCTTCTGGTGGTTTGAGAACGTCAAACCAGATTTTGTTCAGCCCCGAGATATTCAAGAGCTGAAGGATGGTCCGTTATCGGCGAGAGCACCTCTCTGCTAGGCAGTCACCCTACTTCCCGTTGTTGGAGGACTTGATGAGAGACGGCAGTGATGGCGCTGCTCTCTTAG

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

2

Interacting miRNAs (#binding sites)

mmu-miR-134-5p(1), mmu-miR-503-5p(1)

siRNAs for circular RNA silencing
Junction sequence

GAGCTGAAGGATGGTCCGTTATCGGC

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCCAMSAP1_379_ORF_1

1.1901

0.338221816

0.747362876

381

ORF sequence:

ATGGTCCGTTATCGGCGAGAGCACCTCTCTGCTAGGCAGTCACCCTACTTCCCGTTGTTGGAGGACTTGATGAGAGACGGCAGTGATGGCGCTGCTCTCTTAGCAGTGGTTCACTATTATTGCCCAGAGCAGATGAAACTGGATGATATCTGTCTGAAGGAGGTGCCATCAATGGCTGACAGCCTCTATAACATCCGCCTTCTGAGGGAGTTTTCCAACGAGCATCTGAACAAGTGTTTCTATCTCACGCTGGAGGATATGCTGTATGCCCCCCTAGTGCTGAAGCCGAACGTTATGGTTTTTATCGCTGAGCTCTTCTGGTGGTTTGAGAACGTCAAACCAGATTTTGTTCAGCCCCGAGATATTCAAGAGCTGAAGGAT

Peptide sequence:

MVRYRREHLSARQSPYFPLLEDLMRDGSDGAALLAVVHYYCPEQMKLDDICLKEVPSMADSLYNIRLLREFSNEHLNKCFYLTLEDMLYAPLVLKPNVMVFIAELFWWFENVKPDFVQPRDIQELKD

IRESfinder result

IRESfinder score

0.492423095

IRES/non IRES

non-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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