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mmu_ciHarbi1_822

Basic information of circular RNA
PanCircBase ID:

mmu_ciHarbi1_822

mm39_Chr. Position ID:

chr2|91541596|91542418|+

Gene name:

Harbi1

Transcript:

ENSMUST00000142692.2

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

1

Exon/intron offsets:

0

Genomic length:

822

Exon/intron sizes in nt:

822

Flanking exon/introns:

chr2:91541596-91542424

Splice length:

822

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTACAGTGAGCCCATTCCTGGCTGGGGCATCTTTACTTACACGGCTTTTAAAGGAATAAACTTTTTAAATACATTTATGTTTTGGAGGCGGGCGTGATGTGGCAAGGGTGTTGGACGATTCTTTCTTTCCACCATATGGATCTCAGATAGCCAACTAATTTATTTCACCAGGCTTCACAGGCAAACCCTGTGCCCTCGGAGCCATCTTTGTCCCTTAATACTGTTTTGAAAGCGGGTTGAAAAGTGGCCTCGGTGTTCCAGACCTACCTGGTTCACTTAGCTTTTTCCTCCTTTCCTTCCTTTTATACTCTTCCTTCCTTTCTAGCCTAAAGCTTCGGGATTTGGGTCTCTTGAGATGAAGGGAAAGCCTGTTACAGCAGACAGTGTAGGTCCCCAGGCAGGGCCACAGACTGTCTTTCTTCCTTTCTCCCCCCCCCCCACCCCCCCTTTGTTCTACATCTCTAGTTGGACTGGTTTGAGCACTCCCTCATCTGTGGAGCCATAGGGCTTTGCAAAACAAACCTCTGAGTAACCCTTAAGGTGTTTTCAACTTGTCAGCTGTCTCCTGGTTGCCACAGACCTCTTTTACCTTGTAAATTGTTTGTTCTCATGTGTTGTTCTCAGTTGAAATGCCAGGCAGTAGATGAGCCACTGGGATTGAACTCTTATTGTCTGCAAATTAGATCAAGTTTGTCATACAATAGTGAGTCAGTGGAGATAAATCTAGAGTTAACAAGTGAATGGCTGAAAAAGGTGTAGGTTTTGAGTCATTTGGTATGGTTTGGATCACGTTTCTAATTATTTTTTTCTTTTAATTAACAT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TGGCTGAAAAAGGTGTAGGT

56.96

GCCCGCCTCCAAAACATAAA

59.11

174

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TGGTATGGTTTGGATCACGT

56.84

GCCCGCCTCCAAAACATAAA

59.11

143

PCR template sequence:

TCTAGAGTTAACAAGTGAATGGCTGAAAAAGGTGTAGGTTTTGAGTCATTTGGTATGGTTTGGATCACGTTTCTAATTATTTTTTTCTTTTAATTAACATGTACAGTGAGCCCATTCCTGGCTGGGGCATCTTTACTTACACGGCTTTTAAAGGAATAAACTTTTTAAATACATTTATGTTTTGGAGGCGGGCGTGATGT

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-200a-3p(1), mmu-miR-205-5p(1), mmu-miR-328-3p(1), mmu-miR-495-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TTTTAATTAACATGTACAGTGAGCCC

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIHARBI1_822_ORF_5

0.6518

-0.279481809

0.011012056

99

ORF sequence:

ATGTACAGTGAGCCCATTCCTGGCTGGGGCATCTTTACTTACACGGCTTTTAAAGGAATAAACTTTTTAAATACATTTATGTTTTGGAGGCGGGCGTGA

Peptide sequence:

MYSEPIPGWGIFTYTAFKGINFLNTFMFWRRA

IRESfinder result

IRESfinder score

0.897731408

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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