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mmu_ciAirn_810

Basic information of circular RNA
PanCircBase ID:

mmu_ciAirn_810

mm39_Chr. Position ID:

chr17|13035681|13036491|+

Gene name:

Airn

Transcript:

ENSMUST00000161890.2

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

1

Exon/intron offsets:

0

Genomic length:

810

Exon/intron sizes in nt:

810

Flanking exon/introns:

chr17:13035681-13048711

Splice length:

810

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTATGCCTGCTTCTTTTCTTTTTTTTTCCTCTCATTATGGATGGTTGTGAGTCACCATGTGGTTGCTGGGATTTGAACTCATGACCTCTGGATGAGCCATCTCACCAGCCAGTATGCCTGCTTCTTGTCCACCAGAAGACCTGCCTTGGGGGGAGTAAGGTAAAGAGGGCACTCTAGCTGAAAAAACCTGGACCTGACCTGGAGAGGCGGCAGCCACAGAATCTCCAGGAACAAGGTGTTCCCTAAGGATGCGATGGTTGACGGCATCAGGCTGACCAGGAGCAAAGAGGTCACCAGCTACTGACACACCAAAGGTCATGCAAAGTTACCTGTGTTGAAGGCTGACACACAGCCCTGGTAGCCTTCTCTAGCATGAACTGAACAGATAGGCTACCATCACTGAGCTGCAATCAGCAGCAAGGCCGACAATAGATTGGTCAGGGCTTCAATTTCCAGCTCAGCGAGCTAGTCAAGAACAGTGCCCCCACCAACTATGACCTATCTGATAGGAGCATCAACCCTATTATGGCAAAGTGACAGATGTCTCTGTCATGCTGAAAGCTGTATGGTGGGGACCAGGAAGTACTTGTGTACCCTACGTAAGTCCTTAATGGTGCAGACCCAATAAATAGCAGGCTCTGTAGAAGATCCATCCCAAGTTCATCAACACTAAGTTGGGCTGTGGCCACTTCTAACATATAGAGAAGATATCAGTCATGGAATATGTACAAGAGACAGGACTGAATGGGCTGAAGATATGGCTTGGTGGGTAAGCATTTGCCATATAAGTGTGAAGACTGGGCTTGAACC

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGGTGGGTAAGCATTTGCCA

60.18

TGGCTCATCCAGAGGTCATG

59.16

146

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TGGTGGGTAAGCATTTGCCA

60.18

GGCTCATCCAGAGGTCATGAG

59.93

145

PCR template sequence:

TCAGTCATGGAATATGTACAAGAGACAGGACTGAATGGGCTGAAGATATGGCTTGGTGGGTAAGCATTTGCCATATAAGTGTGAAGACTGGGCTTGAACCGTATGCCTGCTTCTTTTCTTTTTTTTTCCTCTCATTATGGATGGTTGTGAGTCACCATGTGGTTGCTGGGATTTGAACTCATGACCTCTGGATGAGCCAT

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

4

Interacting miRNAs (#binding sites)

mmu-miR-9-5p(1), mmu-miR-200b-3p(1), mmu-miR-31-5p(1), mmu-miR-138-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CTGGGCTTGAACCGTATGCCTGCTTC

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIAIRN_810_ORF_3

0.5388

-0.407949255

0.006587114

129

ORF sequence:

ATGGCTTGGTGGGTAAGCATTTGCCATATAAGTGTGAAGACTGGGCTTGAACCGTATGCCTGCTTCTTTTCTTTTTTTTTCCTCTCATTATGGATGGTTGTGAGTCACCATGTGGTTGCTGGGATTTGA

Peptide sequence:

MAWWVSICHISVKTGLEPYACFFSFFFLSLWMVVSHHVVAGI

IRESfinder result

IRESfinder score

0.486750306

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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