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mmu_circCyp20a1_528
Basic information of circular RNA
PanCircBase ID:
mmu_circCyp20a1_528
mm39_Chr. Position ID:
chr1|60391279|60402516|+
Gene name:
Cyp20a1
Transcript:
ENSMUST00000114202.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,788,2393,11069
Genomic length:
11237
Exon/intron sizes in nt:
50,16,71,43,168
Flanking exon/introns:
chr1:60382616-60391279|chr1:60402516-60405807
Splice length:
528
Other database IDs:
circBase: hsa_circ_0057870, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39292
Human Ortholog IDs:
Mature spliced Sequence:
GCTTCCCGGCAAGCTTCAGGAATTCCAGGGCTTACTCCAACTGAAGAAAAAGATGGTAATCTTCCAGACATTGTAAACAGTGGAAGTTTGCATGAGTTCCTGGTTAATTTGCATGAAAGATACGGGCCTGTGGTCTCTTTCTGGTTTGGCAGGCGTCTTGTGGTTAGCTTGGGCACCACTGATGTACTGAAGCAACATTTCAACCCCAATAAGACTTCGGACCCATTTGAAACCATGTTGAAGTCATTATTAGGGTATCAGTCTGGCGGAGGGAGTGCGGGTGAGGACCACGTGAGGAGGAAACTGTATGGAGATGCCGTGACAGCTTCTCTGCATAGTAACTTCCCTCTCCTGCTACAGCTTTCAGAAGAATTGTTAGATAAATGGCTGTCCTATCCAGAGACCCAGCACATACCTCTGAGCCAGCATATGCTCGGTTTTGCTTTGAAGTTTGTCACAAGGATGGTACTGGGTAGCACCTTTGAAGATGAACAGGAGGTCATCCGATTCCAAAAGATTCATGGCACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCGGTTTTGCTTTGAAGT
59.25
CAGTTGGAGTAAGCCCTGGA
59.02
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCGGTTTTGCTTTGAAGT
59.25
TCAGTTGGAGTAAGCCCTGG
59.02
142
PCR template sequence:
TATGCTCGGTTTTGCTTTGAAGTTTGTCACAAGGATGGTACTGGGTAGCACCTTTGAAGATGAACAGGAGGTCATCCGATTCCAAAAGATTCATGGCACAGCTTCCCGGCAAGCTTCAGGAATTCCAGGGCTTACTCCAACTGAAGAAAAAGATGGTAATCTTCCAGACATTGTAAACAGTGGAAGTTTGCATGAGTTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-18a-5p(1), mmu-miR-203-3p(1), mmu-miR-320-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATTCATGGCACAGCTTCCCGGCAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCYP20A1_528_ORF_1
0.8612
0.124738841
0.94133978
822
ORF sequence:
ATGTTGAAGTCATTATTAGGGTATCAGTCTGGCGGAGGGAGTGCGGGTGAGGACCACGTGAGGAGGAAACTGTATGGAGATGCCGTGACAGCTTCTCTGCATAGTAACTTCCCTCTCCTGCTACAGCTTTCAGAAGAATTGTTAGATAAATGGCTGTCCTATCCAGAGACCCAGCACATACCTCTGAGCCAGCATATGCTCGGTTTTGCTTTGAAGTTTGTCACAAGGATGGTACTGGGTAGCACCTTTGAAGATGAACAGGAGGTCATCCGATTCCAAAAGATTCATGGCACAGCTTCCCGGCAAGCTTCAGGAATTCCAGGGCTTACTCCAACTGAAGAAAAAGATGGTAATCTTCCAGACATTGTAAACAGTGGAAGTTTGCATGAGTTCCTGGTTAATTTGCATGAAAGATACGGGCCTGTGGTCTCTTTCTGGTTTGGCAGGCGTCTTGTGGTTAGCTTGGGCACCACTGATGTACTGAAGCAACATTTCAACCCCAATAAGACTTCGGACCCATTTGAAACCATGTTGAAGTCATTATTAGGGTATCAGTCTGGCGGAGGGAGTGCGGGTGAGGACCACGTGAGGAGGAAACTGTATGGAGATGCCGTGACAGCTTCTCTGCATAGTAACTTCCCTCTCCTGCTACAGCTTTCAGAAGAATTGTTAGATAAATGGCTGTCCTATCCAGAGACCCAGCACATACCTCTGAGCCAGCATATGCTCGGTTTTGCTTTGAAGTTTGTCACAAGGATGGTACTGGGTAGCACCTTTGAAGATGAACAGGAGGTCATCCGATTCCAAAAGATTCATGGCACA
Peptide sequence:
MLKSLLGYQSGGGSAGEDHVRRKLYGDAVTASLHSNFPLLLQLSEELLDKWLSYPETQHIPLSQHMLGFALKFVTRMVLGSTFEDEQEVIRFQKIHGTASRQASGIPGLTPTEEKDGNLPDIVNSGSLHEFLVNLHERYGPVVSFWFGRRLVVSLGTTDVLKQHFNPNKTSDPFETMLKSLLGYQSGGGSAGEDHVRRKLYGDAVTASLHSNFPLLLQLSEELLDKWLSYPETQHIPLSQHMLGFALKFVTRMVLGSTFEDEQEVIRFQKIHGT
IRESfinder result
IRESfinder score
0.593156525
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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