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mmu_circBlmh_571
Basic information of circular RNA
PanCircBase ID:
mmu_circBlmh_571
mm39_Chr. Position ID:
chr11|76856640|76862804|+
Gene name:
Blmh
Transcript:
ENSMUST00000021197.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,8,9,10,11
Exon/intron offsets:
0,917,1179,2788,6094
Genomic length:
6164
Exon/intron sizes in nt:
156,159,68,118,70
Flanking exon/introns:
chr11:76845428-76856640|chr11:76862804-76877301
Splice length:
571
Other database IDs:
circAtlas: mmu-Blmh_0001
circAtlas: hsa-BLMH_0001, CIRCpedia: HSA_CIRCpedia_178075
Human Ortholog IDs:
Mature spliced Sequence:
ATATTCAGAGTGGTGTGCATCTGTTTGGGCAACCCACCAGAGACCTTCACCTGGGAGTACCGAGACAAAGATAAAAATTACCACAAGATTGGCCCCATAACACCCTTGCAGTTTTACAAGGAGCACGTGAAGCCGCTCTTCAATATGGAAGATAAGATTTGTTTTGTGAATGACCCACGGCCCCAGCACAAGTACAATAAATTGTACACAGTAGACTACTTGAGCAATATGGTTGGAGGGAGAAAAACGCTGTATAACAACCAGCCCATTGACTTCTTGAAAAAGATGGTTGCTGCCTCCATCAAAGATGGAGAGGCTGTGTGGTTTGGCTGTGATGTTGGAAAACACTTCAATGGCAAGCTGGGCCTCAGTGACATGAATGTCTATGACCATGAGTTAGTGTTCGGTGTCTCCTTGAAGAACATGAATAAAGCTGAGAGGTTGGCTTTTGGTGAGTCACTCATGACCCACGCCATGACCTTCACTGCTGTCTCAGAGAAGGATAATCAGGAAGGTACTTTTGTGAAATGGAGAGTAGAGAATTCATGGGGTGAAGACCACGGCCACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATGACCTTCACTGCTGT
60.61
TTGTCTCGGTACTCCCAGGT
59.89
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATGACCTTCACTGCTGT
60.61
CAGGTGAAGGTCTCTGGTGG
59.68
153
PCR template sequence:
GCCATGACCTTCACTGCTGTCTCAGAGAAGGATAATCAGGAAGGTACTTTTGTGAAATGGAGAGTAGAGAATTCATGGGGTGAAGACCACGGCCACAAAGATATTCAGAGTGGTGTGCATCTGTTTGGGCAACCCACCAGAGACCTTCACCTGGGAGTACCGAGACAAAGATAAAAATTACCACAAGATTGGCCCCATAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-382-3p(1), mmu-miR-350-3p(1), mmu-miR-181d-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACGGCCACAAAGATATTCAGAGTGG
siRNA sets
TCTGAATATCTTTGTGGCC, CTGAATATCTTTGTGGCCG, GAATATCTTTGTGGCCGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBLMH_571_ORF_1
1.0906
0.184272916
0.75530688
501
ORF sequence:
ATGGAAGATAAGATTTGTTTTGTGAATGACCCACGGCCCCAGCACAAGTACAATAAATTGTACACAGTAGACTACTTGAGCAATATGGTTGGAGGGAGAAAAACGCTGTATAACAACCAGCCCATTGACTTCTTGAAAAAGATGGTTGCTGCCTCCATCAAAGATGGAGAGGCTGTGTGGTTTGGCTGTGATGTTGGAAAACACTTCAATGGCAAGCTGGGCCTCAGTGACATGAATGTCTATGACCATGAGTTAGTGTTCGGTGTCTCCTTGAAGAACATGAATAAAGCTGAGAGGTTGGCTTTTGGTGAGTCACTCATGACCCACGCCATGACCTTCACTGCTGTCTCAGAGAAGGATAATCAGGAAGGTACTTTTGTGAAATGGAGAGTAGAGAATTCATGGGGTGAAGACCACGGCCACAAAGATATTCAGAGTGGTGTGCATCTGTTTGGGCAACCCACCAGAGACCTTCACCTGGGAGTACCGAGACAAAGATAA
Peptide sequence:
MEDKICFVNDPRPQHKYNKLYTVDYLSNMVGGRKTLYNNQPIDFLKKMVAASIKDGEAVWFGCDVGKHFNGKLGLSDMNVYDHELVFGVSLKNMNKAERLAFGESLMTHAMTFTAVSEKDNQEGTFVKWRVENSWGEDHGHKDIQSGVHLFGQPTRDLHLGVPRQR
IRESfinder result
IRESfinder score
0.431116032
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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