top of page
mmu_circNpepps_888_2
Basic information of circular RNA
PanCircBase ID:
mmu_circNpepps_888_2
mm39_Chr. Position ID:
chr11|97122714|97133629|-
Gene name:
Npepps
Transcript:
ENSMUST00000167806.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
13,12,11,10,9,8,7,6
Exon/intron offsets:
0,3166,4176,6205,9040,9915,10062,10714
Genomic length:
10915
Exon/intron sizes in nt:
11,06,11,05,16,51,15,30,00,000
Flanking exon/introns:
chr11:97120719-97122714|chr11:97133629-97135253
Splice length:
888
Other database IDs:
circAtlas: mmu-Npepps_0012
Human Ortholog IDs:
Mature spliced Sequence:
AATGTAATTGACAGGAAACCATATCCTGATGATGAAAATTTAGTGGAAGTGAAGTTTGCTCGCACACCTGTTATGTCTACGTATCTGGTGGCATTTGTTGTGGGTGAATATGACTTTGTAGAAACAAGGTCAAAAGATGGTGTGTGTGTCCGTGTTTACACCCCTGTTGGCAAAGCAGAGCAAGGAAAGTTTGCGCTCGAGGTTGCTGCTAAGACCTTGCCTTTTTATAAAGACTACTTCAATGTTCCTTATCCTCTACCTAAAATTGATCTCATTGCTATTGCTGACTTTGCAGCTGGTGCCATGGAGAACTGGGGCCTTGTTACTTATAGGGAAACGGCCTTGCTTATTGATCCAAAAAACTCGTGTTCTTCATCACGCCAGTGGGTTGCTCTGGTTGTGGGACATGAACTCGCCCATCAATGGTTTGGAAATCTTGTTACTATGGAATGGTGGACTCATCTCTGGTTGAATGAAGGCTTTGCATCCTGGATTGAGTATCTTTGTGTAGACCACTGCTTTCCAGAGTATGATATCTGGACTCAGTTTGTTTCTGCAGATTATACCCGTGCCCAGGAACTTGATGCCTTAGATAACAGCCATCCTATTGAAGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAGGACTTTAAGAAAGGAATGAATATGTATTTAACCAAGTTCCAACAAAAGAATGCTGCCACAGAGGATCTCTGGGAAAGTTTGGAAAGTGCCAGTGGCAAACCCATAGCAGCTGTGATGAATACCTGGACCAAACAAATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAACCCATAGCAGCTGTG
59.83
ACATAACAGGTGTGCGAGCA
59.97
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAACCCATAGCAGCTGTG
59.83
CAGGTGTGCGAGCAAACTTC
60.04
147
PCR template sequence:
GGAAAGTTTGGAAAGTGCCAGTGGCAAACCCATAGCAGCTGTGATGAATACCTGGACCAAACAAATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAGAATGTAATTGACAGGAAACCATATCCTGATGATGAAAATTTAGTGGAAGTGAAGTTTGCTCGCACACCTGTTATGTCTACGTATCTGGTGGCATTTGTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
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-188-3p(1), mmu-miR-3065-5p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAGCTGAACAGAATGTAATTGACA
siRNA sets
AATTACATTCTGTTCAGCT, CAATTACATTCTGTTCAGC, TCAATTACATTCTGTTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNPEPPS_888_2_ORF_1
1.1268
0.090682679
0.999923507
1704
ORF sequence:
ATGTCTACGTATCTGGTGGCATTTGTTGTGGGTGAATATGACTTTGTAGAAACAAGGTCAAAAGATGGTGTGTGTGTCCGTGTTTACACCCCTGTTGGCAAAGCAGAGCAAGGAAAGTTTGCGCTCGAGGTTGCTGCTAAGACCTTGCCTTTTTATAAAGACTACTTCAATGTTCCTTATCCTCTACCTAAAATTGATCTCATTGCTATTGCTGACTTTGCAGCTGGTGCCATGGAGAACTGGGGCCTTGTTACTTATAGGGAAACGGCCTTGCTTATTGATCCAAAAAACTCGTGTTCTTCATCACGCCAGTGGGTTGCTCTGGTTGTGGGACATGAACTCGCCCATCAATGGTTTGGAAATCTTGTTACTATGGAATGGTGGACTCATCTCTGGTTGAATGAAGGCTTTGCATCCTGGATTGAGTATCTTTGTGTAGACCACTGCTTTCCAGAGTATGATATCTGGACTCAGTTTGTTTCTGCAGATTATACCCGTGCCCAGGAACTTGATGCCTTAGATAACAGCCATCCTATTGAAGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAGGACTTTAAGAAAGGAATGAATATGTATTTAACCAAGTTCCAACAAAAGAATGCTGCCACAGAGGATCTCTGGGAAAGTTTGGAAAGTGCCAGTGGCAAACCCATAGCAGCTGTGATGAATACCTGGACCAAACAAATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAGAATGTAATTGACAGGAAACCATATCCTGATGATGAAAATTTAGTGGAAGTGAAGTTTGCTCGCACACCTGTTATGTCTACGTATCTGGTGGCATTTGTTGTGGGTGAATATGACTTTGTAGAAACAAGGTCAAAAGATGGTGTGTGTGTCCGTGTTTACACCCCTGTTGGCAAAGCAGAGCAAGGAAAGTTTGCGCTCGAGGTTGCTGCTAAGACCTTGCCTTTTTATAAAGACTACTTCAATGTTCCTTATCCTCTACCTAAAATTGATCTCATTGCTATTGCTGACTTTGCAGCTGGTGCCATGGAGAACTGGGGCCTTGTTACTTATAGGGAAACGGCCTTGCTTATTGATCCAAAAAACTCGTGTTCTTCATCACGCCAGTGGGTTGCTCTGGTTGTGGGACATGAACTCGCCCATCAATGGTTTGGAAATCTTGTTACTATGGAATGGTGGACTCATCTCTGGTTGAATGAAGGCTTTGCATCCTGGATTGAGTATCTTTGTGTAGACCACTGCTTTCCAGAGTATGATATCTGGACTCAGTTTGTTTCTGCAGATTATACCCGTGCCCAGGAACTTGATGCCTTAGATAACAGCCATCCTATTGAAGTCAGTGTGGGCCATCCGTCTGAGGTTGATGAGATATTTGATGCTATATCATATAGCAAAGGTGCATCTGTAATCCGAATGCTACATGACTACATTGGTGATAAGGACTTTAAGAAAGGAATGAATATGTATTTAACCAAGTTCCAACAAAAGAATGCTGCCACAGAGGATCTCTGGGAAAGTTTGGAAAGTGCCAGTGGCAAACCCATAGCAGCTGTGATGAATACCTGGACCAAACAAATGGGATTCCCTCTCATTTATGTGGAAGCTGAACAG
Peptide sequence:
MSTYLVAFVVGEYDFVETRSKDGVCVRVYTPVGKAEQGKFALEVAAKTLPFYKDYFNVPYPLPKIDLIAIADFAAGAMENWGLVTYRETALLIDPKNSCSSSRQWVALVVGHELAHQWFGNLVTMEWWTHLWLNEGFASWIEYLCVDHCFPEYDIWTQFVSADYTRAQELDALDNSHPIEVSVGHPSEVDEIFDAISYSKGASVIRMLHDYIGDKDFKKGMNMYLTKFQQKNAATEDLWESLESASGKPIAAVMNTWTKQMGFPLIYVEAEQNVIDRKPYPDDENLVEVKFARTPVMSTYLVAFVVGEYDFVETRSKDGVCVRVYTPVGKAEQGKFALEVAAKTLPFYKDYFNVPYPLPKIDLIAIADFAAGAMENWGLVTYRETALLIDPKNSCSSSRQWVALVVGHELAHQWFGNLVTMEWWTHLWLNEGFASWIEYLCVDHCFPEYDIWTQFVSADYTRAQELDALDNSHPIEVSVGHPSEVDEIFDAISYSKGASVIRMLHDYIGDKDFKKGMNMYLTKFQQKNAATEDLWESLESASGKPIAAVMNTWTKQMGFPLIYVEAEQ
IRESfinder result
IRESfinder score
0.670354192
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page