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mmu_circBlmh_341
Basic information of circular RNA
PanCircBase ID:
mmu_circBlmh_341
mm39_Chr. Position ID:
chr11|76840785|76843415|+
Gene name:
Blmh
Transcript:
ENSMUST00000021197.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,1084,2541
Genomic length:
2630
Exon/intron sizes in nt:
110,142,89
Flanking exon/introns:
chr11:76837265-76840785|chr11:76843415-76845335
Splice length:
341
Other database IDs:
circAtlas: hsa-BLMH_0012
Human Ortholog IDs:
Mature spliced Sequence:
GACGATGCTGGATCTTTTCTTGTTTGAATGTTATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTTTTGGGACAAGGTTGAACGCTGTTATTTCTTCTTGAATGCTTTTGTGGACACAGCTCAGAAAAAGGAGCCTGAAGATGGGAGACTGGTGCAGTATTTGCTTATGAACCCTACAAATGATGGTGGACAGTGGGATATGCTTGTCAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTCCCGAATCGCATACG
59.77
ACAGGTAAGATTGACTAAACTCA
55.01
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCATACGACAGAGGCTACC
60.32
ACAGGTAAGATTGACTAAACTCA
55.01
146
PCR template sequence:
CAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAGGACGATGCTGGATCTTTTCTTGTTTGAATGTTATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTT
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-200b-3p(1), mmu-miR-335-5p(1), mmu-miR-25-3p(1), mmu-miR-452-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGAATCACAAGGACGATGCTGGAT
siRNA sets
ATCCAGCATCGTCCTTGTG, ATCGTCCTTGTGATTCAGA, CATCGTCCTTGTGATTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBLMH_341_ORF_1
1.042
0.031363497
0.31682917
336
ORF sequence:
ATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTTTTGGGACAAGGTTGAACGCTGTTATTTCTTCTTGAATGCTTTTGTGGACACAGCTCAGAAAAAGGAGCCTGAAGATGGGAGACTGGTGCAGTATTTGCTTATGAACCCTACAAATGATGGTGGACAGTGGGATATGCTTGTCAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAGGACGATGCTGGATCTTTTCTTGTTTGA
Peptide sequence:
MRLPFMKKFNIEEFEFSQSYLFFWDKVERCYFFLNAFVDTAQKKEPEDGRLVQYLLMNPTNDGGQWDMLVNIVEKYGVVPKKCFPESHTTEATRRMNDILNHKDDAGSFLV
IRESfinder result
IRESfinder score
0.73649728
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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