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mmu_circProm1_383
Basic information of circular RNA
PanCircBase ID:
mmu_circProm1_383
mm39_Chr. Position ID:
chr5|44191688|44201748|-
Gene name:
Prom1
Transcript:
ENSMUST00000074113.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,9,8
Exon/intron offsets:
0,3077,9970
Genomic length:
10060
Exon/intron sizes in nt:
75,218,90
Flanking exon/introns:
chr5:44190349-44191688|chr5:44201748-44202861
Splice length:
383
Other database IDs:
circBase: hsa_circ_0069236, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_47846
Human Ortholog IDs:
Mature spliced Sequence:
GCATCGGCTCCGTGCTGGGAGGCAGAATAAAGGACCAACTAAAACCCAAAGTAACTCCTGTCCTCGAAGAGATTAAGGCCATGGCGACAGCCATCAAACAGACCAAGGATGCCCTGCAGAACATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAGAAACAGCATCGAGAATTCGCTCAGCAGCAGTGACTGTACCTCAGATCCAGCCAGCAAGATCTGCGATAGCATCAGACCAAGCCTAAGCAGTCTGGGGAGCAGCCTCAATTCAAGTCAGCTCCCATCAGTGGATAGAGAACTCAACACTGTTACTGAAGTCGACAAAACTGATCTGGAGAGCCTCGTCAAAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTCAGCTCCCATCAGTGG
59.38
TGTCGCCATGGCCTTAATCT
59.45
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTCAGCTCCCATCAGTGG
59.38
CTGTCGCCATGGCCTTAATC
59.05
172
PCR template sequence:
GGGGAGCAGCCTCAATTCAAGTCAGCTCCCATCAGTGGATAGAGAACTCAACACTGTTACTGAAGTCGACAAAACTGATCTGGAGAGCCTCGTCAAAAGGGCATCGGCTCCGTGCTGGGAGGCAGAATAAAGGACCAACTAAAACCCAAAGTAACTCCTGTCCTCGAAGAGATTAAGGCCATGGCGACAGCCATCAAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTCGTCAAAAGGGCATCGGCTCCGT
siRNA sets
GAGCCGATGCCCTTTTGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPROM1_383_ORF_1
1.0269
0.311708152
0.580814048
333
ORF sequence:
ATGGCGACAGCCATCAAACAGACCAAGGATGCCCTGCAGAACATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAGAAACAGCATCGAGAATTCGCTCAGCAGCAGTGACTGTACCTCAGATCCAGCCAGCAAGATCTGCGATAGCATCAGACCAAGCCTAAGCAGTCTGGGGAGCAGCCTCAATTCAAGTCAGCTCCCATCAGTGGATAGAGAACTCAACACTGTTACTGAAGTCGACAAAACTGATCTGGAGAGCCTCGTCAAAAGGGCATCGGCTCCGTGCTGGGAGGCAGAATAA
Peptide sequence:
MATAIKQTKDALQNMSSSLKSLQDAATQLNTNLSSVRNSIENSLSSSDCTSDPASKICDSIRPSLSSLGSSLNSSQLPSVDRELNTVTEVDKTDLESLVKRASAPCWEAE
IRESfinder result
IRESfinder score
0.465289631
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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