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mmu_ciHuwe1_900

Basic information of circular RNA
PanCircBase ID:

mmu_ciHuwe1_900

mm39_Chr. Position ID:

chrX|150677014|150677914|+

Gene name:

Huwe1

Transcript:

ENSMUST00000026292.15

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

42

Exon/intron offsets:

0

Genomic length:

900

Exon/intron sizes in nt:

900

Flanking exon/introns:

chrX:150677014-150677916

Splice length:

900

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTCAGTTTCATTTGCTACTATTCTTTCAGAAAATTCTCTTTAGGCAGATATTGAGACATTGGTTGAGCATTTGACTTAGTAAATTCTGTATGTAATTCTCAGTAATTTCTCTTGGCCTCTTAATACAACTCCCAAGGATTCACTCTAGTCTTTACCTACAAAGTGTTCATTTTGATGTGACAATAGAAGTTAAATTAACTGCAGTTGGTTTCTGTATAGTGCGATCATTGAAAAACAATTGTTTGTTTGGGTGACAGAATCCAATGAAAAGTTTACAGTGCTACCTGTATTCTTACCAAAAAGTTAATGCCTGTATTTCATTGAGGAAGTAATTACATTTATATCAAATTATGGAAATATTTTACTGAACAGCTAGCCTAAACCCATGGTAAACACGAATTGAAAGGAAAAATTGAAGTATCTCAGCAGATGAGAACGGTCACTTCTACTTGGATTGGATTCTGGATCCATTTCTAGGAGACTTGTAGGATATATGAAGTTTCTCAGAAGTTCATACAGACATTTAAAAAATTGTGAGATTGTTTATTGAAATATAAAAACATTTCACCGGGCAGTGGTGGCGCATGCCTTTAATCCCAGCACTTGGGGAGGCAGAGTCAGGTGAATTTCTGAGTTCAAGGCCAGCCTGGCCTACAGAGTTAGTTTCAGGACAGCCAGAGCTACACAGAGAAACCCTGTCTTGAAAAACTTAAAAAAACAAAACAAAATTTGTTTATAGTTTATAAAAGGTAGATTTCTTTACTATAAGACTTGAACTTAATTTTTAAAGAATTATTTCTCCTGCTTTTTATGTACTACACAATCCTTGTTCTGGGTACTTTCTTGTTGATAGTGAATACCAGTGTTCTATTGTCTGACTTTACTGTTTAATTTTGGCCT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

ACACAATCCTTGTTCTGGGT

56.95

GTCAAATGCTCAACCAATGTCTCA

60.02

158

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

ACACAATCCTTGTTCTGGGT

56.95

TCAAATGCTCAACCAATGTCTCA

58.86

157

PCR template sequence:

CCTGCTTTTTATGTACTACACAATCCTTGTTCTGGGTACTTTCTTGTTGATAGTGAATACCAGTGTTCTATTGTCTGACTTTACTGTTTAATTTTGGCCTGTCAGTTTCATTTGCTACTATTCTTTCAGAAAATTCTCTTTAGGCAGATATTGAGACATTGGTTGAGCATTTGACTTAGTAAATTCTGTATGTAATTCTC

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

8

Interacting miRNAs (#binding sites)

mmu-miR-539-5p(2), mmu-miR-200a-3p(1), mmu-miR-203-3p(1), mmu-miR-495-3p(1), mmu-miR-362-5p(1), mmu-miR-324-3p(1), mmu-miR-384-3p(1), mmu-miR-3470b(1)

siRNAs for circular RNA silencing
Junction sequence

TTAATTTTGGCCTGTCAGTTTCATTT

siRNA sets

AAATGAAACTGACAGGCCA, AATGAAACTGACAGGCCAA, AAACTGACAGGCCAAAATT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

NA

NA

NA

NA

NA

ORF sequence:

NA

Peptide sequence:

NA

IRESfinder result

IRESfinder score

0.94331642

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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