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mmu_circZfp280c_802

Basic information of circular RNA
PanCircBase ID:

mmu_circZfp280c_802

mm39_Chr. Position ID:

chrX|47652558|47661688|-

Gene name:

Zfp280c

Transcript:

ENSMUST00000076635.13

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

6

Exon/intron indexes:

9,8,7,6,5,4

Exon/intron offsets:

0,3026,3267,5439,8600,9064

Genomic length:

9130

Exon/intron sizes in nt:

221,110,165,106,134,66

Flanking exon/introns:

chrX:47648701-47652558|chrX:47661688-47667256

Splice length:

802

Other database IDs:

circAtlas: mmu-Zfp280c_0003

Human Ortholog IDs:
Mature spliced Sequence:

ATATTTTGAACAGATGTAGCCCTGGTTCATCTTCAAAGGGACTAAAGAACGGTTCATTCAATCCAGCTATTTCTAATATATTCAAGCCTACGAGTCAACACTACAGAAATCCATCATCGAATGCACTGGTTGCTTTGCCAAGCTTTCATCCTGCTCTCAAATCTTCAGAGAGTTCTGATGGTCAGACTGTGTCTAAACTTGACTTTACCAAGACTTCACCCCAAGAGGATTCCGGTGCTTGTTCGGTCTCACAGTCAGACTCGACCCAAGATATACCGTCTTCCAACATACTGCAACCGAGGACAGGTGTCGATCAAACTTTAGGATTAAAACATCCTTCCACTTCCAAAGTAAACAGTGTTAATCCAAAAAAGCCAAAGACGAGTGCGAGCATTTCTGAAACACGCCCTTGCTCTTCATCATCTTCACAGACGGCGCCTTCAGGGGCTTCTTCCCAAACTGTACTATCAAATGTGAATACCTCATCAGTTCAGTCTGCACCTGGATCATCTTCACTAAGATCTTGTCCAAAGTGCAATGTTAAGTTCCGACTTCTGGATCCTTTGAAGTGCCACATGAAGCGTTGCTGCCCAGACATGATAAATAAGTTTCTGGAAACTCTCAAGTCAGAAAATTCAAAGGCTGTAAGCAAAGCTACCACTGACTCAGATAAAGAAAAACTGATCATGCTTGTCAGTGATTTTTATTATGGAAGACATGAAGGAACTATTGAGGAAAGCCAGAAGACTCACACCACTTTTAAATGTTTCAGTTGCACAAAAGTTCTCAAAAATAATATTAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

GCCAGAAGACTCACACCACT

59.61

TGTTGACTCGTAGGCTTGAA

56.81

164

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

AGCCAGAAGACTCACACCAC

59.61

TGTTGACTCGTAGGCTTGAA

56.81

165

PCR template sequence:

TTTATTATGGAAGACATGAAGGAACTATTGAGGAAAGCCAGAAGACTCACACCACTTTTAAATGTTTCAGTTGCACAAAAGTTCTCAAAAATAATATTAGATATTTTGAACAGATGTAGCCCTGGTTCATCTTCAAAGGGACTAAAGAACGGTTCATTCAATCCAGCTATTTCTAATATATTCAAGCCTACGAGTCAACA

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

11

Interacting miRNAs (#binding sites)

mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-32-5p(1), mmu-miR-7b-5p(1), mmu-miR-92a-3p(1), mmu-miR-205-5p(1), mmu-miR-18a-5p(1), mmu-miR-7a-5p(1), mmu-miR-222-3p(1), mmu-miR-25-3p(1), mmu-miR-202-3p(1)

siRNAs for circular RNA silencing
Junction sequence

AAAATAATATTAGATATTTTGAACAG

siRNA sets

AAATATCTAATATTATTTT, AAAATATCTAATATTATTT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCZFP280C_802_ORF_1

0.713

-0.068611173

0.901693845

894

ORF sequence:

ATGGAAGACATGAAGGAACTATTGAGGAAAGCCAGAAGACTCACACCACTTTTAAATGTTTCAGTTGCACAAAAGTTCTCAAAAATAATATTAGATATTTTGAACAGATGTAGCCCTGGTTCATCTTCAAAGGGACTAAAGAACGGTTCATTCAATCCAGCTATTTCTAATATATTCAAGCCTACGAGTCAACACTACAGAAATCCATCATCGAATGCACTGGTTGCTTTGCCAAGCTTTCATCCTGCTCTCAAATCTTCAGAGAGTTCTGATGGTCAGACTGTGTCTAAACTTGACTTTACCAAGACTTCACCCCAAGAGGATTCCGGTGCTTGTTCGGTCTCACAGTCAGACTCGACCCAAGATATACCGTCTTCCAACATACTGCAACCGAGGACAGGTGTCGATCAAACTTTAGGATTAAAACATCCTTCCACTTCCAAAGTAAACAGTGTTAATCCAAAAAAGCCAAAGACGAGTGCGAGCATTTCTGAAACACGCCCTTGCTCTTCATCATCTTCACAGACGGCGCCTTCAGGGGCTTCTTCCCAAACTGTACTATCAAATGTGAATACCTCATCAGTTCAGTCTGCACCTGGATCATCTTCACTAAGATCTTGTCCAAAGTGCAATGTTAAGTTCCGACTTCTGGATCCTTTGAAGTGCCACATGAAGCGTTGCTGCCCAGACATGATAAATAAGTTTCTGGAAACTCTCAAGTCAGAAAATTCAAAGGCTGTAAGCAAAGCTACCACTGACTCAGATAAAGAAAAACTGATCATGCTTGTCAGTGATTTTTATTATGGAAGACATGAAGGAACTATTGAGGAAAGCCAGAAGACTCACACCACTTTTAAATGTTTCAGTTGCACAAAAGTTCTCAAAAATAATATT

Peptide sequence:

MEDMKELLRKARRLTPLLNVSVAQKFSKIILDILNRCSPGSSSKGLKNGSFNPAISNIFKPTSQHYRNPSSNALVALPSFHPALKSSESSDGQTVSKLDFTKTSPQEDSGACSVSQSDSTQDIPSSNILQPRTGVDQTLGLKHPSTSKVNSVNPKKPKTSASISETRPCSSSSSQTAPSGASSQTVLSNVNTSSVQSAPGSSSLRSCPKCNVKFRLLDPLKCHMKRCCPDMINKFLETLKSENSKAVSKATTDSDKEKLIMLVSDFYYGRHEGTIEESQKTHTTFKCFSCTKVLKNNI

IRESfinder result

IRESfinder score

0.772718756

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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