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mmu_circNpepps_825
Basic information of circular RNA
PanCircBase ID:
mmu_circNpepps_825
mm39_Chr. Position ID:
chr11|97126890|97135361|-
Gene name:
Npepps
Transcript:
ENSMUST00000167806.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
11,10,9,8,7,6,5
Exon/intron offsets:
0,2029,4864,5739,5886,6538,8363
Genomic length:
8471
Exon/intron sizes in nt:
10,51,65,11,53,49,72,00,000
Flanking exon/introns:
chr11:97125941-97126890|chr11:97135361-97139027
Splice length:
825
Other database IDs:
circAtlas: mmu-Npepps_0043
Human Ortholog IDs:
Mature spliced Sequence:
GCTACTGATGCCCGAAGGGCTTTTCCTTGCTGGGATGAGCCTGCTATCAAAGCAACTTTTGATATCTCGCTGGTTGTGCCTAAAGACAGAGTGGCTTTATCAAATATGAATGTAATTGACAGGAAACCATATCCTGATGATGAAAATTTAGTGGAAGTGAAGTTTGCTCGCACACCTGTTATGTCTACGTATCTGGTGGCATTTGTTGTGGGTGAATATGACTTTGTAGAAACAAGGTCAAAAGATGGTGTGTGTGTCCGTGTTTACACCCCTGTTGGCAAAGCAGAGCAAGGAAAGTTTGCGCTCGAGGTTGCTGCTAAGACCTTGCCTTTTTATAAAGACTACTTCAATGTTCCTTATCCTCTACCTAAAATTGATCTCATTGCTATTGCTGACTTTGCAGCTGGTGCCATGGAGAACTGGGGCCTTGTTACTTATAGGGAAACGGCCTTGCTTATTGATCCAAAAAACTCGTGTTCTTCATCACGCCAGTGGGTTGCTCTGGTTGTGGGACATGAACTCGCCCATCAATGGTTTGGAAATCTTGTTACTATGGAATGGTGGACTCATCTCTGGTTGAATGAAGGCTTTGCATCCTGGATTGAGTATCTTTGTGTAGACCACTGCTTTCCAGAGTATGATATCTGGACTCAGTTTGTTTCTGCAGATTATACCCGTGCCCAGGAACTTGATGCCTTAGATAACAGCCATCCTATTGAAGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATCCGTCTGAGGTTGAT
59.82
GATAGCAGGCTCATCCCAGC
60.32
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATCCGTCTGAGGTTGAT
59.82
TTTAGGCACAACCAGCGAGA
59.61
179
PCR template sequence:
TGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAGGCTACTGATGCCCGAAGGGCTTTTCCTTGCTGGGATGAGCCTGCTATCAAAGCAACTTTTGATATCTCGCTGGTTGTGCCTAAAGACAGAGTGGCTTTAT
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
CATTGGTGATAAGGCTACTGATGCCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNPEPPS_825_ORF_1
1.0861
0.089242428
0.999739383
1545
ORF sequence:
ATGAATGTAATTGACAGGAAACCATATCCTGATGATGAAAATTTAGTGGAAGTGAAGTTTGCTCGCACACCTGTTATGTCTACGTATCTGGTGGCATTTGTTGTGGGTGAATATGACTTTGTAGAAACAAGGTCAAAAGATGGTGTGTGTGTCCGTGTTTACACCCCTGTTGGCAAAGCAGAGCAAGGAAAGTTTGCGCTCGAGGTTGCTGCTAAGACCTTGCCTTTTTATAAAGACTACTTCAATGTTCCTTATCCTCTACCTAAAATTGATCTCATTGCTATTGCTGACTTTGCAGCTGGTGCCATGGAGAACTGGGGCCTTGTTACTTATAGGGAAACGGCCTTGCTTATTGATCCAAAAAACTCGTGTTCTTCATCACGCCAGTGGGTTGCTCTGGTTGTGGGACATGAACTCGCCCATCAATGGTTTGGAAATCTTGTTACTATGGAATGGTGGACTCATCTCTGGTTGAATGAAGGCTTTGCATCCTGGATTGAGTATCTTTGTGTAGACCACTGCTTTCCAGAGTATGATATCTGGACTCAGTTTGTTTCTGCAGATTATACCCGTGCCCAGGAACTTGATGCCTTAGATAACAGCCATCCTATTGAAGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAGGCTACTGATGCCCGAAGGGCTTTTCCTTGCTGGGATGAGCCTGCTATCAAAGCAACTTTTGATATCTCGCTGGTTGTGCCTAAAGACAGAGTGGCTTTATCAAATATGAATGTAATTGACAGGAAACCATATCCTGATGATGAAAATTTAGTGGAAGTGAAGTTTGCTCGCACACCTGTTATGTCTACGTATCTGGTGGCATTTGTTGTGGGTGAATATGACTTTGTAGAAACAAGGTCAAAAGATGGTGTGTGTGTCCGTGTTTACACCCCTGTTGGCAAAGCAGAGCAAGGAAAGTTTGCGCTCGAGGTTGCTGCTAAGACCTTGCCTTTTTATAAAGACTACTTCAATGTTCCTTATCCTCTACCTAAAATTGATCTCATTGCTATTGCTGACTTTGCAGCTGGTGCCATGGAGAACTGGGGCCTTGTTACTTATAGGGAAACGGCCTTGCTTATTGATCCAAAAAACTCGTGTTCTTCATCACGCCAGTGGGTTGCTCTGGTTGTGGGACATGAACTCGCCCATCAATGGTTTGGAAATCTTGTTACTATGGAATGGTGGACTCATCTCTGGTTGAATGAAGGCTTTGCATCCTGGATTGAGTATCTTTGTGTAGACCACTGCTTTCCAGAGTATGATATCTGGACTCAGTTTGTTTCTGCAGATTATACCCGTGCCCAGGAACTTGATGCCTTAGATAACAGCCATCCTATTGAAGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAG
Peptide sequence:
MNVIDRKPYPDDENLVEVKFARTPVMSTYLVAFVVGEYDFVETRSKDGVCVRVYTPVGKAEQGKFALEVAAKTLPFYKDYFNVPYPLPKIDLIAIADFAAGAMENWGLVTYRETALLIDPKNSCSSSRQWVALVVGHELAHQWFGNLVTMEWWTHLWLNEGFASWIEYLCVDHCFPEYDIWTQFVSADYTRAQELDALDNSHPIEVSVGHPSEVDEIFDAISYSKGASVIRMLHDYIGDKATDARRAFPCWDEPAIKATFDISLVVPKDRVALSNMNVIDRKPYPDDENLVEVKFARTPVMSTYLVAFVVGEYDFVETRSKDGVCVRVYTPVGKAEQGKFALEVAAKTLPFYKDYFNVPYPLPKIDLIAIADFAAGAMENWGLVTYRETALLIDPKNSCSSSRQWVALVVGHELAHQWFGNLVTMEWWTHLWLNEGFASWIEYLCVDHCFPEYDIWTQFVSADYTRAQELDALDNSHPIEVSVGHPSEVDEIFDAISYSKGASVIRMLHDYIGDK
IRESfinder result
IRESfinder score
0.638940163
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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