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mmu_circRad51c_759
Basic information of circular RNA
PanCircBase ID:
mmu_circRad51c_759
mm39_Chr. Position ID:
chr11|87280659|87293682|-
Gene name:
Rad51c
Transcript:
ENSMUST00000067692.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,5432,7790,11556,12764
Genomic length:
13023
Exon/intron sizes in nt:
6,71,32,13,41,67,259
Flanking exon/introns:
chr11:87279505-87280659|chr11:87293682-87295129
Splice length:
759
Other database IDs:
circAtlas: mmu-Rad51c_0004
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_21569
Human Ortholog IDs:
Mature spliced Sequence:
AAGTTGGGATATCTAAAGAGGAAGCCTTGGAAACTCTACAAATTCTAAGAAGAGAATGTCTCACAAATAAACCAAGATGTGCCGGTACATCTGTGGCAAACGAGAAGTGCACAGCACTGGAACTTCTCGAGCAAGAGCATACCCAGGGCTTCATAATCACCTTCTGTTCAGCACTCGATAACATTCTTGGGGGTGGAATACCCCTAATGAAGACGACAGAAGTTTGTGGTGTACCAGGTGTTGGAAAAACACAGTTATGTATGCAATTGGCAGTAGATGTGCAGATTCCAGAATGTTTTGGGGGCGTGGCCGGTGAAGCAGTATTTATTGATACAGAGGGAAGTTTTATGGTTGATAGAGTGGTCAGCCTTGCAACTGCCTGCATTCAGCACCTTCATCTCATAGCAGGAACACACACGGAAGAAGAACATCAGAAAGCCTTGAAGGATTTTACTCTTGAAAATATTCTTTCCCATATTTATTATTTTCGTTGTCATGATTATACTGAGCTGCTGGCACAAGTCTATCTCCTTCCAGATTTCCTTTCAGATCATCCAAAGGTGCAGCTAGTGATAATAGACGGAATTGCTTTTCCCTTTCGTCATGACCTTGAAGATCTATCCCTTCGTACTCGATTACTAAATGGCCTCGCCCAACAAATGATCAGCCTTGCAAATAATCACAGATTAGCTGTTATTTTAACTAATCAGATGACAACAAAGATTGATAAAAATCAAGCTTTGCTTGTTCCTGCATTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCTTGCAAATAATCACAGA
55.84
ACCGGCACATCTTGGTTTAT
57.49
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCTTGCAAATAATCACAGA
57.29
CCGGCACATCTTGGTTTATTTGT
60.06
180
PCR template sequence:
ATGATCAGCCTTGCAAATAATCACAGATTAGCTGTTATTTTAACTAATCAGATGACAACAAAGATTGATAAAAATCAAGCTTTGCTTGTTCCTGCATTAGAAGTTGGGATATCTAAAGAGGAAGCCTTGGAAACTCTACAAATTCTAAGAAGAGAATGTCTCACAAATAAACCAAGATGTGCCGGTACATCTGTGGCAAA
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-429-3p(1), mmu-miR-18a-5p(1), mmu-miR-143-3p(1), mmu-miR-383-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTCCTGCATTAGAAGTTGGGATATC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRAD51C_759_ORF_1
0.9944
-0.034764179
0.997238237
1311
ORF sequence:
ATGAAGACGACAGAAGTTTGTGGTGTACCAGGTGTTGGAAAAACACAGTTATGTATGCAATTGGCAGTAGATGTGCAGATTCCAGAATGTTTTGGGGGCGTGGCCGGTGAAGCAGTATTTATTGATACAGAGGGAAGTTTTATGGTTGATAGAGTGGTCAGCCTTGCAACTGCCTGCATTCAGCACCTTCATCTCATAGCAGGAACACACACGGAAGAAGAACATCAGAAAGCCTTGAAGGATTTTACTCTTGAAAATATTCTTTCCCATATTTATTATTTTCGTTGTCATGATTATACTGAGCTGCTGGCACAAGTCTATCTCCTTCCAGATTTCCTTTCAGATCATCCAAAGGTGCAGCTAGTGATAATAGACGGAATTGCTTTTCCCTTTCGTCATGACCTTGAAGATCTATCCCTTCGTACTCGATTACTAAATGGCCTCGCCCAACAAATGATCAGCCTTGCAAATAATCACAGATTAGCTGTTATTTTAACTAATCAGATGACAACAAAGATTGATAAAAATCAAGCTTTGCTTGTTCCTGCATTAGAAGTTGGGATATCTAAAGAGGAAGCCTTGGAAACTCTACAAATTCTAAGAAGAGAATGTCTCACAAATAAACCAAGATGTGCCGGTACATCTGTGGCAAACGAGAAGTGCACAGCACTGGAACTTCTCGAGCAAGAGCATACCCAGGGCTTCATAATCACCTTCTGTTCAGCACTCGATAACATTCTTGGGGGTGGAATACCCCTAATGAAGACGACAGAAGTTTGTGGTGTACCAGGTGTTGGAAAAACACAGTTATGTATGCAATTGGCAGTAGATGTGCAGATTCCAGAATGTTTTGGGGGCGTGGCCGGTGAAGCAGTATTTATTGATACAGAGGGAAGTTTTATGGTTGATAGAGTGGTCAGCCTTGCAACTGCCTGCATTCAGCACCTTCATCTCATAGCAGGAACACACACGGAAGAAGAACATCAGAAAGCCTTGAAGGATTTTACTCTTGAAAATATTCTTTCCCATATTTATTATTTTCGTTGTCATGATTATACTGAGCTGCTGGCACAAGTCTATCTCCTTCCAGATTTCCTTTCAGATCATCCAAAGGTGCAGCTAGTGATAATAGACGGAATTGCTTTTCCCTTTCGTCATGACCTTGAAGATCTATCCCTTCGTACTCGATTACTAAATGGCCTCGCCCAACAAATGATCAGCCTTGCAAATAATCACAGATTAGCTGTTATTTTAACTAATCAGATGACAACAAAGATTGATAAAAATCAAGCTTTGCTTGTTCCTGCATTA
Peptide sequence:
MKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEGSFMVDRVVSLATACIQHLHLIAGTHTEEEHQKALKDFTLENILSHIYYFRCHDYTELLAQVYLLPDFLSDHPKVQLVIIDGIAFPFRHDLEDLSLRTRLLNGLAQQMISLANNHRLAVILTNQMTTKIDKNQALLVPALEVGISKEEALETLQILRRECLTNKPRCAGTSVANEKCTALELLEQEHTQGFIITFCSALDNILGGGIPLMKTTEVCGVPGVGKTQLCMQLAVDVQIPECFGGVAGEAVFIDTEGSFMVDRVVSLATACIQHLHLIAGTHTEEEHQKALKDFTLENILSHIYYFRCHDYTELLAQVYLLPDFLSDHPKVQLVIIDGIAFPFRHDLEDLSLRTRLLNGLAQQMISLANNHRLAVILTNQMTTKIDKNQALLVPAL
IRESfinder result
IRESfinder score
0.734997037
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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