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mmu_circAlg12_690

Basic information of circular RNA
PanCircBase ID:

mmu_circAlg12_690

mm39_Chr. Position ID:

chr15|88698656|88700457|-

Gene name:

Alg12

Transcript:

ENSMUST00000162183.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

5,4,3,2

Exon/intron offsets:

0,840,1404,1613

Genomic length:

1801

Exon/intron sizes in nt:

1,95,17,41,33,188

Flanking exon/introns:

chr15:88696362-88698656|chr15:88700457-88703460

Splice length:

690

Other database IDs:

CIRCpedia: MMU_CIRCpedia_33208, circAtlas: mmu-Alg12_0002

Human Ortholog IDs:
Mature spliced Sequence:

GCGCATGAAGTTCAAAGCTCTACATGGCTGGCAAGAAGTCATCGGGCAAGCGGTCATGGCCGCTTCTGGGGCTGCTGGTCACTGTAGCCACCATCCACCTGGTTATATGTCCCTACACCAAGGTAGAAGAGAGCTTCAACCTTCAGGCCACACATGACCTCCTGTACCACCAGCTGGACATAGACAAGTACGACCACCACGAGTTTCCTGGAGTTGTTCCTAGGACGTTCCTCGGGCCGCTGGTGATCGCAGCGTTCTCCAGCCCCGTGGTTTATGTGCTCTCGCTTTTAGAAGTATCCAAATTTTATTCTCAGCTGATAGTCAGAGGAGTCCTTGGGCTTGGTGTGATTTCTGGACTCTGGACATTACAAAAGGAAGTGAGACAGCAGTTCGGAGCCACGGTGGCTGTCATGTTCTGCTGGATATCAGCCACACAGTTTCATCTCATGTTCTACTGTACGAGGACACTCCCCAACGTGTTGGCCCTGGCTGTGGTCTTACCAGCCCTCACAGCCTGGCTGCAGCGGAGGTGGGCCCTGTTTGTCTGGCTCTCAGCCTTCGTCATCATTGGCTTCAGGGCTGAGCTGGCCATGCTGCTGGGCATTGCGCTGCTGCTGACCTTGTACCAAAGAAGACTGACGGTGGCCAGAGTGCTCCGACACGCCATCCCAGCAGGGCTTCTCTGTCTAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CTGCTGCTGACCTTGTACCA

59.96

GGATGGTGGCTACAGTGACC

60.11

178

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AAAGAAGACTGACGGTGGCC

60.25

GGATGGTGGCTACAGTGACC

60.11

159

PCR template sequence:

ATGCTGCTGGGCATTGCGCTGCTGCTGACCTTGTACCAAAGAAGACTGACGGTGGCCAGAGTGCTCCGACACGCCATCCCAGCAGGGCTTCTCTGTCTAGGCGCATGAAGTTCAAAGCTCTACATGGCTGGCAAGAAGTCATCGGGCAAGCGGTCATGGCCGCTTCTGGGGCTGCTGGTCACTGTAGCCACCATCCACCT

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

10

Interacting miRNAs (#binding sites)

mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-143-3p(1), mmu-miR-139-5p(1), mmu-miR-495-3p(1), mmu-miR-214-3p(1), mmu-miR-370-3p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1)

siRNAs for circular RNA silencing
Junction sequence

CTTCTCTGTCTAGGCGCATGAAGTTC

siRNA sets

ATGCGCCTAGACAGAGAAG

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCALG12_690_ORF_1

1.0642

0.225302037

0.923850449

675

ORF sequence:

ATGGCTGGCAAGAAGTCATCGGGCAAGCGGTCATGGCCGCTTCTGGGGCTGCTGGTCACTGTAGCCACCATCCACCTGGTTATATGTCCCTACACCAAGGTAGAAGAGAGCTTCAACCTTCAGGCCACACATGACCTCCTGTACCACCAGCTGGACATAGACAAGTACGACCACCACGAGTTTCCTGGAGTTGTTCCTAGGACGTTCCTCGGGCCGCTGGTGATCGCAGCGTTCTCCAGCCCCGTGGTTTATGTGCTCTCGCTTTTAGAAGTATCCAAATTTTATTCTCAGCTGATAGTCAGAGGAGTCCTTGGGCTTGGTGTGATTTCTGGACTCTGGACATTACAAAAGGAAGTGAGACAGCAGTTCGGAGCCACGGTGGCTGTCATGTTCTGCTGGATATCAGCCACACAGTTTCATCTCATGTTCTACTGTACGAGGACACTCCCCAACGTGTTGGCCCTGGCTGTGGTCTTACCAGCCCTCACAGCCTGGCTGCAGCGGAGGTGGGCCCTGTTTGTCTGGCTCTCAGCCTTCGTCATCATTGGCTTCAGGGCTGAGCTGGCCATGCTGCTGGGCATTGCGCTGCTGCTGACCTTGTACCAAAGAAGACTGACGGTGGCCAGAGTGCTCCGACACGCCATCCCAGCAGGGCTTCTCTGTCTAGGCGCATGA

Peptide sequence:

MAGKKSSGKRSWPLLGLLVTVATIHLVICPYTKVEESFNLQATHDLLYHQLDIDKYDHHEFPGVVPRTFLGPLVIAAFSSPVVYVLSLLEVSKFYSQLIVRGVLGLGVISGLWTLQKEVRQQFGATVAVMFCWISATQFHLMFYCTRTLPNVLALAVVLPALTAWLQRRWALFVWLSAFVIIGFRAELAMLLGIALLLTLYQRRLTVARVLRHAIPAGLLCLGA

IRESfinder result

IRESfinder score

0.437228897

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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