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mmu_circZranb3_1543

Basic information of circular RNA
PanCircBase ID:

mmu_circZranb3_1543

mm39_Chr. Position ID:

chr1|127915733|128019747|-

Gene name:

Zranb3

Transcript:

ENSMUST00000086614.12

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

11

Exon/intron indexes:

12,11,10,9,8,7,6,5,4,3,2

Exon/intron offsets:

0,4803,8856,11344,28046,29561,44852,48401,52821,69985,103846

Genomic length:

104014

Exon/intron sizes in nt:

15,01,80,12,01,20,11,70,00,00,00,00,00,00,000

Flanking exon/introns:

chr1:127904281-127915733|chr1:128019747-128029989

Splice length:

1543

Other database IDs:

circAtlas: mmu-Zranb3_0018

Human Ortholog IDs:
Mature spliced Sequence:

GCTCACCATGCCTACAGCTGGTAGCAAGAAGAAGGCTCCCACACCGCAGATTTCTTGTTTAACAAGCGAATCATATACACAGCTGGATTTTTTACCGGACAAGCTTAGAACAAAACTGCTTCCGTTCCAAAAAGATGGCATCGTTTTTGCCCTCAGAAGAGATGGCAGGTGTATGGTGGCTGATGAAATGGGTCTAGGAAAGACAATCCAGGCGATTGCAATTGCTTACTTCTACAAAGAGGAGTGGCCCCTGCTGATAGTCGTCCCTTCATCTCTAAGATACCCTTGGATAGAAGAACTAGAAAAATGGATCCCAGAGCTAGAGCCAGAGGAAATCAATGTCGTCATGAACAAAACTGACATTGGGAGAATCCCGGGCAGCAGAGTGACAGTTCTGGGCTACGGTCTCTTAACCACAGATGCAGAGACTTTGCTGGATGCACTGAACACGCAGAACTTCAGGGTCGTGATAGTGGATGAGTCACACTACATGAAGTCCAGAACTGCTGCCCGCAGCAAGATTCTCCTGCCCATGGTGCAGAAGGCCAGGAGAGCCATTCTTCTTACAGGAACCCCAGCTCTGGGAAGGCCTGAGGAGCTTTTCATGCAGATTGAGGCTCTTTTCCCACAAAAATTTGGAACTTGGATTGAGTATGCTAAAAGATACTGCAATGCACATGTCAGATACTTTGGCAAAAGGCGTCAGTGGGACTGTAGAGGGGCATCAAACCTTAGTGAGCTTCACCAGCTCCTAAATGACATAATGATCAGAAGACTAAAGAGTGAAGTTTTAAGCCAGCTGCCCCCGAAAGTCAGACAGCGCATTCCCTTTGACCTTCCCCCAGCAGCTGTCAAGGAACTGAATGCCAGCTTTGAAGAATGGCAGAAACTAATGAGAGCTCCAAATTCAGGTGCCATGGAGACGGTTATGGGGTTGATAACACGCATGTTCAAACAGACTGCAATTGCCAAGGCAGGTGCAGTGAAGGACTATATTAAGATGCTGCTTCAGAACGACTCCCTTAAATTTCTGGTCTTTGCGCACCATTTAAGTATGCTCCAGGCTTGCACAGAAGCAGTCATCGAAAGCAAGTCTCGTTACATCAGGATAGATGGAAGTGTTCCATCTTCAGAAAGAATTCATCTGGTTAATCAATTTCAGAAGGACCCCGATACTCGTGTGGCTATCCTGAGCATTCAGGCTGCTGGCCAGGGTTTAACGTTTACTGCTGCGAGTCACGTTGTCTTTGCTGAGTTGTACTGGGACCCTGGACATATCAAACAAGCAGAAGACCGAGCTCACCGAATCGGACAGTGCAGTTCTGTGAATATTCACTACCTTATTGCAAATGGTACTCTGGACAGCCTAATGTGGGCAATGCTGAATCGAAAGGCTCAGGTCACAGGGAGCACACTGAATGGCAGGAAGGAGAAACTCCAGGCTACGGAAGATGACAAGGAGAAGTGGGGTTTTCTGCAGTTTGCTGAAGCATGGACCCCAAGTGACAGTTTTGAAGAGCTCAAGGATTCTGTGTTTACTCAC

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

AGGAGAAGTGGGGTTTTCTGC

60.2

AGAAATCTGCGGTGTGGGAG

60.04

141

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GGAGAAGTGGGGTTTTCTGC

58.75

AGAAATCTGCGGTGTGGGAG

60.04

140

PCR template sequence:

TACGGAAGATGACAAGGAGAAGTGGGGTTTTCTGCAGTTTGCTGAAGCATGGACCCCAAGTGACAGTTTTGAAGAGCTCAAGGATTCTGTGTTTACTCACGCTCACCATGCCTACAGCTGGTAGCAAGAAGAAGGCTCCCACACCGCAGATTTCTTGTTTAACAAGCGAATCATATACACAGCTGGATTTTTTACCGGAC

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

24

Interacting miRNAs (#binding sites)

mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-30e-5p(1), mmu-miR-92a-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-33-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-320-3p(1), mmu-miR-326-3p(1), mmu-miR-143-3p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-666-5p(1), mmu-miR-384-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-3470b(1), mmu-miR-544-5p(1)

siRNAs for circular RNA silencing
Junction sequence

TGTGTTTACTCACGCTCACCATGCCT

siRNA sets

ATGGTGAGCGTGAGTAAAC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCZRANB3_1543_ORF_1

0.9559

0.159777635

0.999894057

1668

ORF sequence:

ATGGCAGGAAGGAGAAACTCCAGGCTACGGAAGATGACAAGGAGAAGTGGGGTTTTCTGCAGTTTGCTGAAGCATGGACCCCAAGTGACAGTTTTGAAGAGCTCAAGGATTCTGTGTTTACTCACGCTCACCATGCCTACAGCTGGTAGCAAGAAGAAGGCTCCCACACCGCAGATTTCTTGTTTAACAAGCGAATCATATACACAGCTGGATTTTTTACCGGACAAGCTTAGAACAAAACTGCTTCCGTTCCAAAAAGATGGCATCGTTTTTGCCCTCAGAAGAGATGGCAGGTGTATGGTGGCTGATGAAATGGGTCTAGGAAAGACAATCCAGGCGATTGCAATTGCTTACTTCTACAAAGAGGAGTGGCCCCTGCTGATAGTCGTCCCTTCATCTCTAAGATACCCTTGGATAGAAGAACTAGAAAAATGGATCCCAGAGCTAGAGCCAGAGGAAATCAATGTCGTCATGAACAAAACTGACATTGGGAGAATCCCGGGCAGCAGAGTGACAGTTCTGGGCTACGGTCTCTTAACCACAGATGCAGAGACTTTGCTGGATGCACTGAACACGCAGAACTTCAGGGTCGTGATAGTGGATGAGTCACACTACATGAAGTCCAGAACTGCTGCCCGCAGCAAGATTCTCCTGCCCATGGTGCAGAAGGCCAGGAGAGCCATTCTTCTTACAGGAACCCCAGCTCTGGGAAGGCCTGAGGAGCTTTTCATGCAGATTGAGGCTCTTTTCCCACAAAAATTTGGAACTTGGATTGAGTATGCTAAAAGATACTGCAATGCACATGTCAGATACTTTGGCAAAAGGCGTCAGTGGGACTGTAGAGGGGCATCAAACCTTAGTGAGCTTCACCAGCTCCTAAATGACATAATGATCAGAAGACTAAAGAGTGAAGTTTTAAGCCAGCTGCCCCCGAAAGTCAGACAGCGCATTCCCTTTGACCTTCCCCCAGCAGCTGTCAAGGAACTGAATGCCAGCTTTGAAGAATGGCAGAAACTAATGAGAGCTCCAAATTCAGGTGCCATGGAGACGGTTATGGGGTTGATAACACGCATGTTCAAACAGACTGCAATTGCCAAGGCAGGTGCAGTGAAGGACTATATTAAGATGCTGCTTCAGAACGACTCCCTTAAATTTCTGGTCTTTGCGCACCATTTAAGTATGCTCCAGGCTTGCACAGAAGCAGTCATCGAAAGCAAGTCTCGTTACATCAGGATAGATGGAAGTGTTCCATCTTCAGAAAGAATTCATCTGGTTAATCAATTTCAGAAGGACCCCGATACTCGTGTGGCTATCCTGAGCATTCAGGCTGCTGGCCAGGGTTTAACGTTTACTGCTGCGAGTCACGTTGTCTTTGCTGAGTTGTACTGGGACCCTGGACATATCAAACAAGCAGAAGACCGAGCTCACCGAATCGGACAGTGCAGTTCTGTGAATATTCACTACCTTATTGCAAATGGTACTCTGGACAGCCTAATGTGGGCAATGCTGAATCGAAAGGCTCAGGTCACAGGGAGCACACTGAATGGCAGGAAGGAGAAACTCCAGGCTACGGAAGATGACAAGGAGAAGTGGGGTTTTCTGCAGTTTGCTGAAGCATGGACCCCAAGTGACAGTTTTGAAGAGCTCAAGGATTCTGTGTTTACTCAC

Peptide sequence:

MAGRRNSRLRKMTRRSGVFCSLLKHGPQVTVLKSSRILCLLTLTMPTAGSKKKAPTPQISCLTSESYTQLDFLPDKLRTKLLPFQKDGIVFALRRDGRCMVADEMGLGKTIQAIAIAYFYKEEWPLLIVVPSSLRYPWIEELEKWIPELEPEEINVVMNKTDIGRIPGSRVTVLGYGLLTTDAETLLDALNTQNFRVVIVDESHYMKSRTAARSKILLPMVQKARRAILLTGTPALGRPEELFMQIEALFPQKFGTWIEYAKRYCNAHVRYFGKRRQWDCRGASNLSELHQLLNDIMIRRLKSEVLSQLPPKVRQRIPFDLPPAAVKELNASFEEWQKLMRAPNSGAMETVMGLITRMFKQTAIAKAGAVKDYIKMLLQNDSLKFLVFAHHLSMLQACTEAVIESKSRYIRIDGSVPSSERIHLVNQFQKDPDTRVAILSIQAAGQGLTFTAASHVVFAELYWDPGHIKQAEDRAHRIGQCSSVNIHYLIANGTLDSLMWAMLNRKAQVTGSTLNGRKEKLQATEDDKEKWGFLQFAEAWTPSDSFEELKDSVFTH

IRESfinder result

IRESfinder score

0.519091741

IRES/non IRES

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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