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mmu_circArih2_575
Basic information of circular RNA
PanCircBase ID:
mmu_circArih2_575
mm39_Chr. Position ID:
chr9|108485800|108492345|-
Gene name:
Arih2
Transcript:
ENSMUST00000013338.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,11,10,9,8,7
Exon/intron offsets:
0,1176,1295,3031,5124,6423
Genomic length:
6545
Exon/intron sizes in nt:
1,52,22,51,11,81,10,120
Flanking exon/introns:
chr9:108485251-108485800|chr9:108492345-108493876
Splice length:
575
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213522, circAtlas: mmu-Arih2_0003
Human Ortholog IDs:
Mature spliced Sequence:
GAATCTCATGTATGGCTCAGGATTGTCCACTTCGAACACCAGAGGACTTTGTATTTCCCTTGCTTCCCAATGAAGAATTGAGAGATAAATACAGGCGCTACCTCTTTAGGGACTATGTGGAGAGCCATTTCCAGCTCCAGCTGTGCCCCGGTGCAGACTGCCCCATGGTTATCCGGGTACAGGAGCCTAGAGCCCGCCGAGTGCAGTGCAATCGGTGCAGCGAGGTCTTCTGTTTCAAGTGTCGACAGATGTATCACGCCCCCACAGACTGCGCCACAATCCGGAAATGGCTCACCAAGTGTGCAGACGACTCCGAAACGGCTAACTACATTAGTGCTCACACTAAAGACTGTCCCAAGTGCAACATCTGCATCGAGAAGAATGGAGGCTGTAATCACATGCAATGCTCCAAGTGTAAGCACGACTTCTGCTGGATGTGTCTAGGAGACTGGAAGACGCATGGTAGTGAGTACTATGAATGTAGTCGGTACAAGGAGAATCCTGACATTGTCAACCAGAGCCAGCAAGCACAGGCCAGGGAGGCCCTCAAGAAGTACTTGTTCTACTTTGAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCAACCAGAGCCAGCAA
60.11
CTTCATTGGGAAGCAAGGGA
57.78
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGTCAACCAGAGCCAGCA
59.89
CTTCATTGGGAAGCAAGGGA
57.78
144
PCR template sequence:
TGAATGTAGTCGGTACAAGGAGAATCCTGACATTGTCAACCAGAGCCAGCAAGCACAGGCCAGGGAGGCCCTCAAGAAGTACTTGTTCTACTTTGAGAGGGAATCTCATGTATGGCTCAGGATTGTCCACTTCGAACACCAGAGGACTTTGTATTTCCCTTGCTTCCCAATGAAGAATTGAGAGATAAATACAGGCGCTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-25-3p(2), mmu-let-7a-5p(1), mmu-miR-32-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-92a-3p(1), mmu-let-7c-5p(1), mmu-miR-181b-5p(1), mmu-let-7d-5p(1), mmu-miR-136-5p(1), mmu-miR-363-3p(1), mmu-miR-182-5p(1), mmu-miR-98-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTACTTTGAGAGGGAATCTCATGTAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARIH2_575_ORF_1
0.7829
0.230448581
0.856021769
645
ORF sequence:
ATGGCTCAGGATTGTCCACTTCGAACACCAGAGGACTTTGTATTTCCCTTGCTTCCCAATGAAGAATTGAGAGATAAATACAGGCGCTACCTCTTTAGGGACTATGTGGAGAGCCATTTCCAGCTCCAGCTGTGCCCCGGTGCAGACTGCCCCATGGTTATCCGGGTACAGGAGCCTAGAGCCCGCCGAGTGCAGTGCAATCGGTGCAGCGAGGTCTTCTGTTTCAAGTGTCGACAGATGTATCACGCCCCCACAGACTGCGCCACAATCCGGAAATGGCTCACCAAGTGTGCAGACGACTCCGAAACGGCTAACTACATTAGTGCTCACACTAAAGACTGTCCCAAGTGCAACATCTGCATCGAGAAGAATGGAGGCTGTAATCACATGCAATGCTCCAAGTGTAAGCACGACTTCTGCTGGATGTGTCTAGGAGACTGGAAGACGCATGGTAGTGAGTACTATGAATGTAGTCGGTACAAGGAGAATCCTGACATTGTCAACCAGAGCCAGCAAGCACAGGCCAGGGAGGCCCTCAAGAAGTACTTGTTCTACTTTGAGAGGGAATCTCATGTATGGCTCAGGATTGTCCACTTCGAACACCAGAGGACTTTGTATTTCCCTTGCTTCCCAATGAAGAATTGA
Peptide sequence:
MAQDCPLRTPEDFVFPLLPNEELRDKYRRYLFRDYVESHFQLQLCPGADCPMVIRVQEPRARRVQCNRCSEVFCFKCRQMYHAPTDCATIRKWLTKCADDSETANYISAHTKDCPKCNICIEKNGGCNHMQCSKCKHDFCWMCLGDWKTHGSEYYECSRYKENPDIVNQSQQAQAREALKKYLFYFERESHVWLRIVHFEHQRTLYFPCFPMKN
IRESfinder result
IRESfinder score
0.439782736
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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