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mmu_circHormad2_474
Basic information of circular RNA
PanCircBase ID:
mmu_circHormad2_474
mm39_Chr. Position ID:
chr11|4358589|4362280|-
Gene name:
Hormad2
Transcript:
ENSMUST00000109948.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,9,8
Exon/intron offsets:
0,417,3623
Genomic length:
3691
Exon/intron sizes in nt:
254,152,68
Flanking exon/introns:
chr11:4296666-4358589|chr11:4362280-4370703
Splice length:
474
Other database IDs:
CIRCpedia: MMU_CIRCpedia_227865, circAtlas: mmu-Hormad2_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_133250
Human Ortholog IDs:
Mature spliced Sequence:
AAAGTGACTGAGATATACCAATTCAGATTCAAATACACAAAAAAAGGAACCACTATGGACTTTGACAGCAGCAGCACAAGCTTTGAAAGTGGGACAGACAGTGAAGATATTAAGAAAGCCTGTTCCCTACTAATCCGTCAATTGTATATACTGATGCAGAATCTTGGACCCCTTCCGAATGATGTTATACTTACTATGAAACTCCATTATTATAACTCAGTGACCCCACATGATTACCAACCCCCTGGCTTTAAAGAAGCGGTGAATTCACACTTCCTGCTGTTTGAGGGGGAGCCTGTGAGCCTTCGAATGGGTTCAGTCTCCTCTGGCTTTCACAGCATGAAAGTAAAAGTCACAACGGAGGCCACCAGAATGCTCGATGGGGAGAACAGTGTCAGTCAGGACGATGGCACTACTGAGATAGCTCATCAGGGGCTAGACTGTGACGAGGAAGAGGAGGCCTGCGGCAGTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCGATGGGGAGAACAGTG
60.46
GTGCTGCTGCTGTCAAAGTC
60.04
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGATGGGGAGAACAGTGTCA
59.39
GTGCTGCTGCTGTCAAAGTC
60.04
174
PCR template sequence:
GCTCGATGGGGAGAACAGTGTCAGTCAGGACGATGGCACTACTGAGATAGCTCATCAGGGGCTAGACTGTGACGAGGAAGAGGAGGCCTGCGGCAGTCAAAAAGTGACTGAGATATACCAATTCAGATTCAAATACACAAAAAAAGGAACCACTATGGACTTTGACAGCAGCAGCACAAGCTTTGAAAGTGGGACAGACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-27a-3p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
CTGCGGCAGTCAAAAAGTGACTGAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHORMAD2_474_ORF_1
1.0702
0.169936541
0.979590158
894
ORF sequence:
ATGGACTTTGACAGCAGCAGCACAAGCTTTGAAAGTGGGACAGACAGTGAAGATATTAAGAAAGCCTGTTCCCTACTAATCCGTCAATTGTATATACTGATGCAGAATCTTGGACCCCTTCCGAATGATGTTATACTTACTATGAAACTCCATTATTATAACTCAGTGACCCCACATGATTACCAACCCCCTGGCTTTAAAGAAGCGGTGAATTCACACTTCCTGCTGTTTGAGGGGGAGCCTGTGAGCCTTCGAATGGGTTCAGTCTCCTCTGGCTTTCACAGCATGAAAGTAAAAGTCACAACGGAGGCCACCAGAATGCTCGATGGGGAGAACAGTGTCAGTCAGGACGATGGCACTACTGAGATAGCTCATCAGGGGCTAGACTGTGACGAGGAAGAGGAGGCCTGCGGCAGTCAAAAAGTGACTGAGATATACCAATTCAGATTCAAATACACAAAAAAAGGAACCACTATGGACTTTGACAGCAGCAGCACAAGCTTTGAAAGTGGGACAGACAGTGAAGATATTAAGAAAGCCTGTTCCCTACTAATCCGTCAATTGTATATACTGATGCAGAATCTTGGACCCCTTCCGAATGATGTTATACTTACTATGAAACTCCATTATTATAACTCAGTGACCCCACATGATTACCAACCCCCTGGCTTTAAAGAAGCGGTGAATTCACACTTCCTGCTGTTTGAGGGGGAGCCTGTGAGCCTTCGAATGGGTTCAGTCTCCTCTGGCTTTCACAGCATGAAAGTAAAAGTCACAACGGAGGCCACCAGAATGCTCGATGGGGAGAACAGTGTCAGTCAGGACGATGGCACTACTGAGATAGCTCATCAGGGGCTAGACTGTGACGAGGAAGAGGAGGCCTGCGGCAGTCAA
Peptide sequence:
MDFDSSSTSFESGTDSEDIKKACSLLIRQLYILMQNLGPLPNDVILTMKLHYYNSVTPHDYQPPGFKEAVNSHFLLFEGEPVSLRMGSVSSGFHSMKVKVTTEATRMLDGENSVSQDDGTTEIAHQGLDCDEEEEACGSQKVTEIYQFRFKYTKKGTTMDFDSSSTSFESGTDSEDIKKACSLLIRQLYILMQNLGPLPNDVILTMKLHYYNSVTPHDYQPPGFKEAVNSHFLLFEGEPVSLRMGSVSSGFHSMKVKVTTEATRMLDGENSVSQDDGTTEIAHQGLDCDEEEEACGSQ
IRESfinder result
IRESfinder score
0.644974643
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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