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mmu_circProm1_316
Basic information of circular RNA
PanCircBase ID:
mmu_circProm1_316
mm39_Chr. Position ID:
chr5|44191665|44194983|-
Gene name:
Prom1
Transcript:
ENSMUST00000198347.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,3100
Genomic length:
3318
Exon/intron sizes in nt:
98,218
Flanking exon/introns:
chr5:44190349-44191665|chr5:44194983-44201658
Splice length:
316
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCATCAAACAGACCAAGGATGCCCTGCAGAACATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAGAAACAGCATCGAGAATTCGCTCAGCAGCAGTGACTGTACCTCAGATCCAGCCAGCAAGATCTGCGATAGCATCAGACCAAGCCTAAGCAGTCTGGGGAGCAGCCTCAATTCAAGTCAGCTCCCATCAGTGGATAGAGAACTCAACACTGTTACTGAAGTCGACAAAACTGATCTGGAGAGCCTCGTCAAAAGGGTATGCTCCTTGGAACAACTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGATCTGGAGAGCCTCGT
60.03
CTCACAGAGCTCAGGTTGGT
59.32
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATCTGGAGAGCCTCGTCA
60.03
CTCACAGAGCTCAGGTTGGT
59.32
148
PCR template sequence:
AGCTCCCATCAGTGGATAGAGAACTCAACACTGTTACTGAAGTCGACAAAACTGATCTGGAGAGCCTCGTCAAAAGGGTATGCTCCTTGGAACAACTAAGCCATCAAACAGACCAAGGATGCCCTGCAGAACATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAG
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
TGGAACAACTAAGCCATCAAACAGAC
siRNA sets
TTTGATGGCTTAGTTGTTC,TTGATGGCTTAGTTGTTCC,TGTTTGATGGCTTAGTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPROM1_316_ORF_1
0.8289
0.215383564
0.543233634
417
ORF sequence:
ATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAGAAACAGCATCGAGAATTCGCTCAGCAGCAGTGACTGTACCTCAGATCCAGCCAGCAAGATCTGCGATAGCATCAGACCAAGCCTAAGCAGTCTGGGGAGCAGCCTCAATTCAAGTCAGCTCCCATCAGTGGATAGAGAACTCAACACTGTTACTGAAGTCGACAAAACTGATCTGGAGAGCCTCGTCAAAAGGGTATGCTCCTTGGAACAACTAAGCCATCAAACAGACCAAGGATGCCCTGCAGAACATGAGCAGCAGCCTGAAAAGTCTCCAAGATGCAGCCACCCAGCTCAATACCAACCTGAGCTCTGTGAGAAACAGCATCGAGAATTCGCTCAGCAGCAGTGA
Peptide sequence:
MSSSLKSLQDAATQLNTNLSSVRNSIENSLSSSDCTSDPASKICDSIRPSLSSLGSSLNSSQLPSVDRELNTVTEVDKTDLESLVKRVCSLEQLSHQTDQGCPAEHEQQPEKSPRCSHPAQYQPELCEKQHREFAQQQ
IRESfinder result
IRESfinder score
0.573110261
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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