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mmu_circArid4a_457
Basic information of circular RNA
PanCircBase ID:
mmu_circArid4a_457
mm39_Chr. Position ID:
chr12|71086612|71094134|+
Gene name:
Arid4a
Transcript:
ENSMUST00000046305.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,5185,6275,7355
Genomic length:
7522
Exon/intron sizes in nt:
1,33,80,77,167
Flanking exon/introns:
chr12:71084139-71086612|chr12:71094134-71106835
Splice length:
457
Other database IDs:
circAtlas: hsa-ARID4A_0021
Human Ortholog IDs:
Mature spliced Sequence:
CACTGAAGACGAAAAGGAAGAAGAAAGCAGCGAAGAGGAAGATGAAGATAAGAGGCGTCTCAATGACGAATTATTAGGAAAAGTTGTAAGTGTGGCCTCCACAGCAGAGAGCACTGGATGGTACCCTGCTTTGGTTGTCTCTCCCAGCTGCAATGATGACGTCACAGTGAAAAAAGATCAGTGTTTAGTTCGATCATTTATTGATTCTAAATTTTATTCTATAGCAAGAAAGGACATTAAGGAACTGGACATTCTCACTCTACCAGAATCTGAGCTCTGTGCTAGGCCAGGGCTGCGAAGAGCAAGTGTCTTCCTAAAAGGTAGGATTGTTCCTGATAATTGGAAAATGGATATAAGTGAAATCCTTGAGTCCTCCAGCAGTGATGACGAAGAATGCCCAGCTGAGGAACATGAAGAGGAGAAGGAAAAAGAGGCCAAAAAGGAGGAAGAAGAGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTTGAGTCCTCCAGCAGT
60.18
TCATCTTCCTCTTCGCTGCT
58.81
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTGAGTCCTCCAGCAGTG
60.04
TTCATCTTCCTCTTCGCTGCT
59.45
140
PCR template sequence:
TGAAATCCTTGAGTCCTCCAGCAGTGATGACGAAGAATGCCCAGCTGAGGAACATGAAGAGGAGAAGGAAAAAGAGGCCAAAAAGGAGGAAGAAGAGCTGCACTGAAGACGAAAAGGAAGAAGAAAGCAGCGAAGAGGAAGATGAAGATAAGAGGCGTCTCAATGACGAATTATTAGGAAAAGTTGTAAGTGTGGCCTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-185-5p(1), mmu-miR-325-3p(1), mmu-miR-384-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAGAAGAGCTGCACTGAAGACGAA
siRNA sets
TTCAGTGCAGCTCTTCTTC, TCTTCAGTGCAGCTCTTCT, TTCGTCTTCAGTGCAGCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARID4A_457_ORF_1
1.0285
0.229892949
0.805332907
531
ORF sequence:
ATGACGAAGAATGCCCAGCTGAGGAACATGAAGAGGAGAAGGAAAAAGAGGCCAAAAAGGAGGAAGAAGAGCTGCACTGAAGACGAAAAGGAAGAAGAAAGCAGCGAAGAGGAAGATGAAGATAAGAGGCGTCTCAATGACGAATTATTAGGAAAAGTTGTAAGTGTGGCCTCCACAGCAGAGAGCACTGGATGGTACCCTGCTTTGGTTGTCTCTCCCAGCTGCAATGATGACGTCACAGTGAAAAAAGATCAGTGTTTAGTTCGATCATTTATTGATTCTAAATTTTATTCTATAGCAAGAAAGGACATTAAGGAACTGGACATTCTCACTCTACCAGAATCTGAGCTCTGTGCTAGGCCAGGGCTGCGAAGAGCAAGTGTCTTCCTAAAAGGTAGGATTGTTCCTGATAATTGGAAAATGGATATAAGTGAAATCCTTGAGTCCTCCAGCAGTGATGACGAAGAATGCCCAGCTGAGGAACATGAAGAGGAGAAGGAAAAAGAGGCCAAAAAGGAGGAAGAAGAGCTG
Peptide sequence:
MTKNAQLRNMKRRRKKRPKRRKKSCTEDEKEEESSEEEDEDKRRLNDELLGKVVSVASTAESTGWYPALVVSPSCNDDVTVKKDQCLVRSFIDSKFYSIARKDIKELDILTLPESELCARPGLRRASVFLKGRIVPDNWKMDISEILESSSSDDEECPAEEHEEEKEKEAKKEEEEL
IRESfinder result
IRESfinder score
0.40158705
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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