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mmu_circNpepps_1060
Basic information of circular RNA
PanCircBase ID:
mmu_circNpepps_1060
mm39_Chr. Position ID:
chr11|97120655|97135361|-
Gene name:
Npepps
Transcript:
ENSMUST00000167806.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
14,13,12,11,10,9,8,7,6,5
Exon/intron offsets:
0,2059,5225,6235,8264,11099,11974,12121,12773,14598
Genomic length:
14706
Exon/intron sizes in nt:
6,41,10,61,10,51,65,11,00,00,00,00,000
Flanking exon/introns:
chr11:97117694-97120655|chr11:97135361-97139027
Splice length:
1060
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCTACTGATGCCCGAAGGGCTTTTCCTTGCTGGGATGAGCCTGCTATCAAAGCAACTTTTGATATCTCGCTGGTTGTGCCTAAAGACAGAGTGGCTTTATCAAATATGAATGTAATTGACAGGAAACCATATCCTGATGATGAAAATTTAGTGGAAGTGAAGTTTGCTCGCACACCTGTTATGTCTACGTATCTGGTGGCATTTGTTGTGGGTGAATATGACTTTGTAGAAACAAGGTCAAAAGATGGTGTGTGTGTCCGTGTTTACACCCCTGTTGGCAAAGCAGAGCAAGGAAAGTTTGCGCTCGAGGTTGCTGCTAAGACCTTGCCTTTTTATAAAGACTACTTCAATGTTCCTTATCCTCTACCTAAAATTGATCTCATTGCTATTGCTGACTTTGCAGCTGGTGCCATGGAGAACTGGGGCCTTGTTACTTATAGGGAAACGGCCTTGCTTATTGATCCAAAAAACTCGTGTTCTTCATCACGCCAGTGGGTTGCTCTGGTTGTGGGACATGAACTCGCCCATCAATGGTTTGGAAATCTTGTTACTATGGAATGGTGGACTCATCTCTGGTTGAATGAAGGCTTTGCATCCTGGATTGAGTATCTTTGTGTAGACCACTGCTTTCCAGAGTATGATATCTGGACTCAGTTTGTTTCTGCAGATTATACCCGTGCCCAGGAACTTGATGCCTTAGATAACAGCCATCCTATTGAAGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAGGACTTTAAGAAAGGAATGAATATGTATTTAACCAAGTTCCAACAAAAGAATGCTGCCACAGAGGATCTCTGGGAAAGTTTGGAAAGTGCCAGTGGCAAACCCATAGCAGCTGTGATGAATACCTGGACCAAACAAATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAGGTAGAAGATGACAGAGTGCTGAAGCTGTCTCAGAAGAAGTTTTGTGCCAGTGGACCATATGGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAGAGTGCTGAAGCTGT
59.24
TTTAGGCACAACCAGCGAGA
59.61
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAGAGTGCTGAAGCTGT
59.24
TCTTTAGGCACAACCAGCGA
59.61
142
PCR template sequence:
ATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAGGTAGAAGATGACAGAGTGCTGAAGCTGTCTCAGAAGAAGTTTTGTGCCAGTGGACCATATGGCGGCTACTGATGCCCGAAGGGCTTTTCCTTGCTGGGATGAGCCTGCTATCAAAGCAACTTTTGATATCTCGCTGGTTGTGCCTAAAGACAGAGTGGCTTTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-30c-5p(1), mmu-miR-495-3p(1), mmu-miR-30b-5p(1), mmu-miR-183-5p(1), mmu-miR-335-3p(1), mmu-miR-484(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1), mmu-miR-1199-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGACCATATGGCGGCTACTGATGCCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNPEPPS_1060_ORF_1
1.1268
0.117243725
0.993087943
1065
ORF sequence:
ATGGCGGCTACTGATGCCCGAAGGGCTTTTCCTTGCTGGGATGAGCCTGCTATCAAAGCAACTTTTGATATCTCGCTGGTTGTGCCTAAAGACAGAGTGGCTTTATCAAATATGAATGTAATTGACAGGAAACCATATCCTGATGATGAAAATTTAGTGGAAGTGAAGTTTGCTCGCACACCTGTTATGTCTACGTATCTGGTGGCATTTGTTGTGGGTGAATATGACTTTGTAGAAACAAGGTCAAAAGATGGTGTGTGTGTCCGTGTTTACACCCCTGTTGGCAAAGCAGAGCAAGGAAAGTTTGCGCTCGAGGTTGCTGCTAAGACCTTGCCTTTTTATAAAGACTACTTCAATGTTCCTTATCCTCTACCTAAAATTGATCTCATTGCTATTGCTGACTTTGCAGCTGGTGCCATGGAGAACTGGGGCCTTGTTACTTATAGGGAAACGGCCTTGCTTATTGATCCAAAAAACTCGTGTTCTTCATCACGCCAGTGGGTTGCTCTGGTTGTGGGACATGAACTCGCCCATCAATGGTTTGGAAATCTTGTTACTATGGAATGGTGGACTCATCTCTGGTTGAATGAAGGCTTTGCATCCTGGATTGAGTATCTTTGTGTAGACCACTGCTTTCCAGAGTATGATATCTGGACTCAGTTTGTTTCTGCAGATTATACCCGTGCCCAGGAACTTGATGCCTTAGATAACAGCCATCCTATTGAAGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAGGACTTTAAGAAAGGAATGAATATGTATTTAACCAAGTTCCAACAAAAGAATGCTGCCACAGAGGATCTCTGGGAAAGTTTGGAAAGTGCCAGTGGCAAACCCATAGCAGCTGTGATGAATACCTGGACCAAACAAATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAGGTAGAAGATGACAGAGTGCTGAAGCTGTCTCAGAAGAAGTTTTGTGCCAGTGGACCATATGGC
Peptide sequence:
MAATDARRAFPCWDEPAIKATFDISLVVPKDRVALSNMNVIDRKPYPDDENLVEVKFARTPVMSTYLVAFVVGEYDFVETRSKDGVCVRVYTPVGKAEQGKFALEVAAKTLPFYKDYFNVPYPLPKIDLIAIADFAAGAMENWGLVTYRETALLIDPKNSCSSSRQWVALVVGHELAHQWFGNLVTMEWWTHLWLNEGFASWIEYLCVDHCFPEYDIWTQFVSADYTRAQELDALDNSHPIEVSVGHPSEVDEIFDAISYSKGASVIRMLHDYIGDKDFKKGMNMYLTKFQQKNAATEDLWESLESASGKPIAAVMNTWTKQMGFPLIYVEAEQVEDDRVLKLSQKKFCASGPYG
IRESfinder result
IRESfinder score
0.607906877
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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