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mmu_ciEif1a_137

Basic information of circular RNA
PanCircBase ID:

mmu_ciEif1a_137

mm39_Chr. Position ID:

chr18|46740809|46740946|+

Gene name:

Eif1a

Transcript:

ENSMUST00000235849.2

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

3

Exon/intron offsets:

0

Genomic length:

137

Exon/intron sizes in nt:

137

Flanking exon/introns:

chr18:46740809-46748859

Splice length:

137

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAAAATGAAAATGAATCTGAGAAAAGAGAGTTGGTGTTTAAAGAGGATGGGCAGGAGTATGCTCAGGTGATCAAAATGCTGGGAAATGGACGGTTGGAAGCAATGTGCTTTGACGGTGTGAGGAGGCTGTGCCAT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CTGGGAAATGGACGGTTGGA

59.96

GCATACTCCTGCCCATCCTC

59.96

121

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CTGGGAAATGGACGGTTGGA

59.96

GAGCATACTCCTGCCCATCC

59.96

123

PCR template sequence:

TGATCAAAATGCTGGGAAATGGACGGTTGGAAGCAATGTGCTTTGACGGTGTGAGGAGGCTGTGCCATGTAAAAATGAAAATGAATCTGAGAAAAGAGAGTTGGTGTTTAAAGAGGATGGGCAGGAGTATGCTCAG

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-342-3p(1), mmu-miR-335-3p(1)

siRNAs for circular RNA silencing
Junction sequence

GAGGCTGTGCCATGTAAAAATGAAAA

siRNA sets

TTTTCATTTTTACATGGCA, TTTCATTTTTACATGGCAC, CATTTTTACATGGCACAGC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIEIF1A_137_ORF_1

1.0837

-0.182041466

0.046267729

132

ORF sequence:

ATGCTGGGAAATGGACGGTTGGAAGCAATGTGCTTTGACGGTGTGAGGAGGCTGTGCCATGTAAAAATGAAAATGAATCTGAGAAAAGAGAGTTGGTGTTTAAAGAGGATGGGCAGGAGTATGCTCAGGTGA

Peptide sequence:

MLGNGRLEAMCFDGVRRLCHVKMKMNLRKESWCLKRMGRSMLR

IRESfinder result

IRESfinder score

0.251675839

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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