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mmu_circZfp236_442
Basic information of circular RNA
PanCircBase ID:
mmu_circZfp236_442
mm39_Chr. Position ID:
chr18|82682962|82689935|-
Gene name:
Zfp236
Transcript:
ENSMUST00000182122.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,3734,6848
Genomic length:
6973
Exon/intron sizes in nt:
14,41,73,125
Flanking exon/introns:
chr18:82676331-82682962|chr18:82689935-82692431
Splice length:
442
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31087, circAtlas: mmu-Zfp236_0013
circAtlas: hsa-ZNF236_0109
Human Ortholog IDs:
Mature spliced Sequence:
GGCGTCAGGTACAAGATCTTATAATCGGAACATTGACAGAAGCAGCTTCCCGTACTCATGCCCACACTGCGGAAAGACGTTCCAGAAGCCCAGCCAGTTAACGCGACACATCAGGATACACACAGGTGAAAGGCCATTCAAGTGCAGTGAGTGTGGAAAAGCTTTTAACCAGAAAGGGGCGCTGCAGACCCATATGATCAAGCACACAGGAGAGAAGCCACACGCTTGTGCCTTTTGTCCTGCCGCCTTTTCTCAGAAGGGGAACCTGCAGTCCCATGTTCAGAGGGTCCACTCAGAGGTAAAAAATGGGCCTACCTATAACTGCACAGAGTGTAGCTGCGTGTTTAAAAGCTTAGGTAGCTTAAATACTCATATCAGCAAGATGCATATGGGTGGACCACCAAATTCTACAACCTCTGCAGAGACTGCACATGTTATAACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAGATGCATATGGGTGGAC
59.39
CTGGGCTTCTGGAACGTCTT
59.96
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAGATGCATATGGGTGGAC
59.39
GAACGTCTTTCCGCAGTGTG
59.77
147
PCR template sequence:
GTTTAAAAGCTTAGGTAGCTTAAATACTCATATCAGCAAGATGCATATGGGTGGACCACCAAATTCTACAACCTCTGCAGAGACTGCACATGTTATAACGGGCGTCAGGTACAAGATCTTATAATCGGAACATTGACAGAAGCAGCTTCCCGTACTCATGCCCACACTGCGGAAAGACGTTCCAGAAGCCCAGCCAGTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-25-3p(1), mmu-miR-218-5p(1), mmu-miR-680(1), mmu-miR-1198-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACATGTTATAACGGGCGTCAGGTACA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZFP236_442_ORF_1
0.8897
-0.006086597
0.159214639
273
ORF sequence:
ATGATCAAGCACACAGGAGAGAAGCCACACGCTTGTGCCTTTTGTCCTGCCGCCTTTTCTCAGAAGGGGAACCTGCAGTCCCATGTTCAGAGGGTCCACTCAGAGGTAAAAAATGGGCCTACCTATAACTGCACAGAGTGTAGCTGCGTGTTTAAAAGCTTAGGTAGCTTAAATACTCATATCAGCAAGATGCATATGGGTGGACCACCAAATTCTACAACCTCTGCAGAGACTGCACATGTTATAACGGGCGTCAGGTACAAGATCTTATAA
Peptide sequence:
MIKHTGEKPHACAFCPAAFSQKGNLQSHVQRVHSEVKNGPTYNCTECSCVFKSLGSLNTHISKMHMGGPPNSTTSAETAHVITGVRYKIL
IRESfinder result
IRESfinder score
0.519359556
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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