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mmu_ciHspa5_508
Basic information of circular RNA
PanCircBase ID:
mmu_ciHspa5_508
mm39_Chr. Position ID:
chr2|34663319|34663827|+
Gene name:
Hspa5
Transcript:
ENSMUST00000028222.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
508
Exon/intron sizes in nt:
508
Flanking exon/introns:
chr2:34663319-34663832
Splice length:
508
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAATAACGTGTGAAACAGTGTTGAGTGTTTGATTGCTGTTGCTCCCCCTCGATGACTTGTGTAGGGAAGCCTTCATGGTTTGAAACCTTTCAATTTTTTTTTAAAGATTTATTTATTATTATACATAATTTCACTGTAGCTGACTTCAGACACACCAGAAGAGAGTGTCAGATCTCATTATGGGTGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTTCGGAAGAGCAGTCAGTGCCCTTACCTGCCGAGCCATCTCACCAGCCCCAGAAACCTTTCAATCTTAACTTTTAGTGATTTAGTGTTTTGTGGGAGGTCAAGGTATATGCTAGTCAGCCTTTATGAGTTACCACTGCTTAATTCTAATGACAAAAGCGTATGATATAGCAGTAAACTGACTTAGAAACTGTTGTGGCTTGACTAGTTGATAAGAGTGACAGAAGTGAGAACACCATGTACTTCAATCATCTTTAAGTATGATTGCACGGTTGTCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAACTGTTGTGGCTTGACT
58
CACAAGTCATCGAGGGGGAG
59.82
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTTGTGGCTTGACTAGTTGA
60.12
CACAAGTCATCGAGGGGGAG
59.82
153
PCR template sequence:
TGACTTAGAAACTGTTGTGGCTTGACTAGTTGATAAGAGTGACAGAAGTGAGAACACCATGTACTTCAATCATCTTTAAGTATGATTGCACGGTTGTCCTGTGAATAACGTGTGAAACAGTGTTGAGTGTTTGATTGCTGTTGCTCCCCCTCGATGACTTGTGTAGGGAAGCCTTCATGGTTTGAAACCTTTCAATTTTT
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-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-181a-5p(1), mmu-miR-223-3p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACGGTTGTCCTGTGAATAACGTGT
siRNA sets
TTATTCACAGGACAACCGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.875649104
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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