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mmu_circHspbap1_368
Basic information of circular RNA
PanCircBase ID:
mmu_circHspbap1_368
mm39_Chr. Position ID:
chr16|35607559|35622088|+
Gene name:
Hspbap1
Transcript:
ENSMUST00000231579.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,14347
Genomic length:
14529
Exon/intron sizes in nt:
186,182
Flanking exon/introns:
chr16:35590909-35607559|chr16:35622088-35634287
Splice length:
368
Other database IDs:
CIRCpedia: MMU_CIRCpedia_212653
circBase: hsa_circ_0008009, circAtlas: hsa-HSPBAP1_0002, CIRCpedia: HSA_CIRCpedia_105343
Human Ortholog IDs:
Mature spliced Sequence:
GTGAACCTGTCAAACCTTTTACACCAGAGAAAGCGAAAGAGATTATAATGTCTTTACAGCAGCCTGCAATCTTCTGTAACATGGTTTTCGATTGGCCATCACGACACTGGACTGCGAAACACCTTTCGAAGGTCTTGGAGGGCAAGCAGATACGGTTCAGAATGGGCCTGAGAGGCACAGGCACAGTTCCTCAGTATGAAACCGAATGTAGTTATGTGGATGCGACGCTCGAGGAGTTTTTGACCTGGAACTGTGACCAGTCTAGTATCTCTGGACCATTCAAAGATTATGAACATTCTAAATTCTGGGCTTACGCTGACTATAAGTATTTTGTTACTCTGTTTGAGGACAAGACAGATGTTTTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCTGGGCTTACGCTGACT
59.09
AGAAGATTGCAGGCTGCTGT
59.96
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCTGGGCTTACGCTGACT
59.09
ACAGAAGATTGCAGGCTGCT
59.96
144
PCR template sequence:
CTCTGGACCATTCAAAGATTATGAACATTCTAAATTCTGGGCTTACGCTGACTATAAGTATTTTGTTACTCTGTTTGAGGACAAGACAGATGTTTTCCAGGTGAACCTGTCAAACCTTTTACACCAGAGAAAGCGAAAGAGATTATAATGTCTTTACAGCAGCCTGCAATCTTCTGTAACATGGTTTTCGATTGGCCATC
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-20a-5p(1), mmu-miR-7b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATGTTTTCCAGGTGAACCTGTCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHSPBAP1_368_ORF_1
0.7901
0.100828221
0.328282218
369
ORF sequence:
ATGTCTTTACAGCAGCCTGCAATCTTCTGTAACATGGTTTTCGATTGGCCATCACGACACTGGACTGCGAAACACCTTTCGAAGGTCTTGGAGGGCAAGCAGATACGGTTCAGAATGGGCCTGAGAGGCACAGGCACAGTTCCTCAGTATGAAACCGAATGTAGTTATGTGGATGCGACGCTCGAGGAGTTTTTGACCTGGAACTGTGACCAGTCTAGTATCTCTGGACCATTCAAAGATTATGAACATTCTAAATTCTGGGCTTACGCTGACTATAAGTATTTTGTTACTCTGTTTGAGGACAAGACAGATGTTTTCCAGGTGAACCTGTCAAACCTTTTACACCAGAGAAAGCGAAAGAGATTATAA
Peptide sequence:
MSLQQPAIFCNMVFDWPSRHWTAKHLSKVLEGKQIRFRMGLRGTGTVPQYETECSYVDATLEEFLTWNCDQSSISGPFKDYEHSKFWAYADYKYFVTLFEDKTDVFQVNLSNLLHQRKRKRL
IRESfinder result
IRESfinder score
0.659701292
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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