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mmu_circHsf1_371
Basic information of circular RNA
PanCircBase ID:
mmu_circHsf1_371
mm39_Chr. Position ID:
chr15|76380169|76381160|+
Gene name:
Hsf1
Transcript:
ENSMUST00000226872.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,483,866
Genomic length:
991
Exon/intron sizes in nt:
109,137,125
Flanking exon/introns:
chr15:76361917-76380169|chr15:76381160-76381818
Splice length:
371
Other database IDs:
circAtlas: hsa-HSF1_0005
Human Ortholog IDs:
Mature spliced Sequence:
AGTGGGAACAGCTTCCACGTGTTTGACCAGGGCCAGTTTGCCAAGGAGGTGCTGCCCAAGTACTTCAAGCACAACAACATGGCTAGCTTCGTGCGGCAGCTCAACATGTATGGCTTCCGAAAAGTAGTCCACATTGAGCAGGGTGGCCTGGTCAAGCCTGAGAGAGATGACACCGAGTTCCAGCATCCTTGTTTCTTGCGTGGACAGGAACAGCTCCTTGAGAACATCAAGAGGAAAGTGACCAGCGTGTCCACCCTGAAGAGTGAGGACATAAAAATACGCCAGGACAGTGTCACCCGGCTGTTGACAGATGTGCAGCTGATGAAGGGGAAACAGGAGTGTATGGACTCCAAGCTCCTGGCCATGAAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGTTGACAGATGTGCAGC
60.11
GCACGAAGCTAGCCATGTTG
59.9
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATACGCCAGGACAGTGTCAC
59.75
AAGTACTTGGGCAGCACCTC
59.96
160
PCR template sequence:
TAAAAATACGCCAGGACAGTGTCACCCGGCTGTTGACAGATGTGCAGCTGATGAAGGGGAAACAGGAGTGTATGGACTCCAAGCTCCTGGCCATGAAGCAAGTGGGAACAGCTTCCACGTGTTTGACCAGGGCCAGTTTGCCAAGGAGGTGCTGCCCAAGTACTTCAAGCACAACAACATGGCTAGCTTCGTGCGGCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-22-3p(1), mmu-miR-182-5p(1), mmu-miR-218-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCCATGAAGCAAGTGGGAACAGCT
siRNA sets
TTCCCACTTGCTTCATGGC, GTTCCCACTTGCTTCATGG, TCCCACTTGCTTCATGGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHSF1_371_ORF_1
0.9521
0.254057022
0.6409943
420
ORF sequence:
ATGGCTAGCTTCGTGCGGCAGCTCAACATGTATGGCTTCCGAAAAGTAGTCCACATTGAGCAGGGTGGCCTGGTCAAGCCTGAGAGAGATGACACCGAGTTCCAGCATCCTTGTTTCTTGCGTGGACAGGAACAGCTCCTTGAGAACATCAAGAGGAAAGTGACCAGCGTGTCCACCCTGAAGAGTGAGGACATAAAAATACGCCAGGACAGTGTCACCCGGCTGTTGACAGATGTGCAGCTGATGAAGGGGAAACAGGAGTGTATGGACTCCAAGCTCCTGGCCATGAAGCAAGTGGGAACAGCTTCCACGTGTTTGACCAGGGCCAGTTTGCCAAGGAGGTGCTGCCCAAGTACTTCAAGCACAACAACATGGCTAGCTTCGTGCGGCAGCTCAACATGTATGGCTTCCGAAAAGTAG
Peptide sequence:
MASFVRQLNMYGFRKVVHIEQGGLVKPERDDTEFQHPCFLRGQEQLLENIKRKVTSVSTLKSEDIKIRQDSVTRLLTDVQLMKGKQECMDSKLLAMKQVGTASTCLTRASLPRRCCPSTSSTTTWLASCGSSTCMASEK
IRESfinder result
IRESfinder score
0.406035735
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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