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mmu_ciNsfl1c_4010
Basic information of circular RNA
PanCircBase ID:
mmu_ciNsfl1c_4010
mm39_Chr. Position ID:
chr2|151338601|151342611|+
Gene name:
Nsfl1c
Transcript:
ENSMUST00000089140.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
4010
Exon/intron sizes in nt:
4010
Flanking exon/introns:
chr2:151338601-151342634
Splice length:
4010
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGACCAACTTCAGTTGCTACATGAATGTTTCCAGAAAAGGGACTTTCCTTTCTGACTTGACAGATTATGAACCAAGAGGTTTAAAGATCAACTAAAAAGAACTGAGGGATTCAAAGGTCAACTTACAAGGGTTTTTTTGTGGCTTGGTTTGTTTGTTTGTTTGTTTGCTTGCTTGCTTCCTTGTTTTTGTTTTGAATGTGAGTGGGTGTTCTGCCTGCCTGTATGTTTATGCACTGTGGGGACCAGAAGAAGGCATTGGATTTCCTGAAACTGGAGTTAATACATGATTGTGGGCCACCATGTGGGTGCTGGGACTTGAACTGGGGCTTCTGGGAGAACATTCAATGCTCCTAACTGCCAAGCCATCTCTCTAGCCCCTACTTAAGATCTTTAAGGGCTGTGTTTATGAACTTTGGGGAGTCACTTGTCTTATTTCTGGACTAGGAGTGCCATAGTAGAGATGAGGTTAATGGCCTGTCACACTAGTAAGATGATCATGGAAATAGATACCTCTTCTGAAGTTGACACGGGGAGTTAACTAACATTTGTGTTATGCCACCTTCCCTAGACCTTTGGCCACAGTCAATCACTTTTGTGATTGGCTCATGAGGAGAATGTTGGCCTTCCCAGATTCTCTCTACAGAAGCGTCTGAGCTCCCACACTTCTTTCATACTTTTAGTCTAATTGCACTTACTCCAGGGTATATGTTGTCAGAAAATTTTGCTGGGTTTGAATTCAACTCCAGTATGTAGAAAAAATGTCTCTCTACTATGAAGTGGTAAATTCTCACAGAGGGTCTCTGAGCTTTAAACTACATTTTTTCCCTTTGAGAAACACTAACACCAAATCTCATTGGTCCTTCATGTCTTTCCCTGCCTCCCACAGAAGGGGGGGGGGGTCACAGGAAAGTGATCTTTTCAATTATTTGCAGTGAGATACTGATGAAATACTGTAATGTTATTGCCTGCGGGGTGGGTTGTAAGTATATGGGCTGCTGGCAAAGGTGGCAAATTTGTGATCCAACCTCACTTTGGGTTATTGACATGTCAGAAGTACCAAGGAGGAGAAATTGAAATGTAGCCTCTAATGCTAGTCATTTGTCCCTCCTCTCTTCTTCCACAGTCCAGAATAACCCTTAGCGCATCAAGGGTTTATTAGTGTAGGGCCAGGGAGGCTAACTACCCAGGTTCAGGCTCAGAGACTCATGACTTGCGACAGAGTATTTATCTCAGTTTCTCAGTTTTCATCACTGTCAAATGGAAATTGTAATAGTGTCTGCTACTTAGCAGAGTCAGTGAATTAACCCAAGCCAGGCGTGGTGGCACACACTTTTAACCCTAGCACTTGGAAAGAAGGTGAGTTCAAGGCCAGCCTGATCTATATAGGACAGCCCCAGCTATGCAAAGAGACCTTGACTCAAAAGCAAAAAGCCAGACCTCAGAGCACACTTCCTTTAATCCCAGCACTGCCTAGGCAGAAGCAGGTAGAGCTCTGCCACCCTGTCTCAAAAACAAACAAACAAACAACCCAACTTTATGTAGTACTTAGAGCATAATATGTTGCCTACTATGACTGACACTGTACCCTGCCTCATTCCACAACTGGCAGGTGGGTGTGGGTGGGTGGATGTGAGAGAGAGAGAGAAAGAGAGAGAGAGAGAGAGACTGAGAATCTGTGTGTTTTACAATAACAGTAAAGAACAAGGAGCTACAGCTTAACATCAGCATTAAACGTGAAAGGAATGTAAGACTGGCCAGGAGTTGAGGCCTCTTAGCCTTTCTTACTGTTTTGCTTAAGCCCTAGCTTTGACTGTGGGCTTCTGTGAAGGACAAAAGAGGACGGAAAGGGGGTGTGGCTTTTCATTGTCTTTGTTTAGGAGGAAAATGCTGACTGGATTTTCTCAGAAGAAACTAAACTGTACTAGCATCCCAAAGGAATTTGGTGGTAGTCAGGGAGCAGCTGCTCTCCAGCCTTTGACCTAGCTGTTACAGGACACTTAGCCTGCTGCTGACTGACCCCTGTTCACCTGTCATCTACCTTTCATGTTGTCTCTGACGCCAAGTGAGAACAGTCACTCTAGAATGGAGCATTTAGTGTGGAGCCCTGGAGCTTCCAGGAGGAGTCTGTAGAAAGGGATAGTGGAATGTCTTTAGATTAAAATTACTGTAGGTACAGGTTTAACTATACTTTGGCAGGTATCTTCTGGCAAGAGAGTCTATTAGATTCCCATAAGAAGAATCTAATAAGGTGTTTTGCATAATTTACTGTGGGAGGAAGTCTTAAGCTCAATATAAACCATTATCATTGCTGAGCACTCAGTGCATCTTTTTTTGTCATCCACCTTGGGTGAGTACTGTACTGTTCCCACTGTATCGATGCAGACACAAGAGCTGGGCTTCTTCCCTAGATCACACAAGCCAGCAAATGGAGGGTAGAAGTCCGAGCTCTTCTGCTTCCTGAGTCTCAGTTTTCTGTGCAGCATGTTGCTTCTCATGGATGCTCAGAAGTCCTCCAAAGTCTTTCCTGAATCTGCCTTTCTCATCTTAACCCCTTTCCTTTTCTTAAATCCTTTGTTCCAACCAAACTAGTTCCTTTGATGGCCCATCTCTGTGATATGTGTGGTTCTGTCTTTGTTGGTGTCCTCTAAATTGCTGTAGTGGCTGTCTTGCTTTCTGCCTGTCAATCTCAGTTCACATCCCACACCCATGTTTGCCTTCATCCTTGCTCCTCTGCTGAGCAGCACACCACAGCCCTATTCCTCAGAACTCCAGTTGCAACTCTAAATCTGTTTATAAGTAACATCTCTCTCATGTTGTCTTGAACCCTTTTCCTGATAATTTAACTTTTCATATTAATAAAATGAGAAGTAGGAGAGTTTTTGCACTAGCCATCTGTCTGCTGAAGCCAGAGATAACCCCTCAAACTTCTCCTCCACACCCTGTGGGGTTCACCCAACCCCACCCCCTGAATATTAGGAATAGGACTTGGCAGGAGAAGTGCCTCATGCCTATAGTCTGAGCACCTGGAAAACAGGCATGAGGATCTAAATCTAAATAAAAGATCTAAGGAAACTTTTTAAAAATTATCCTGCAGTAGAAATAGGCTGAGAGCTCTATGCTCCCTGCCACCCACACATTGATTCTGCAGGACTCCTTGACCTTTCTCTAGTGTGTAGTCTCTTGTCTCTGCATTTACATAAGTGTTTTCCATAATGCTATTTTAGTTCCCATTTCCCACTATCTCCACCATCCTTTTTTCACTCAGTCTCCTGTTCACCGGTTCCTTGGTAATGGTCCAATTGTGCCTTTTTGTAGGAAGCCTTTCCCTCACGGGAGACAAGAGGCTTTGTGTTCATAAGGTCATGTGCACTGATACAGCCCCTGTTGTGCATCCTTATAGTAGATAGTTGCTTATCTGTGCCACTAGCCTGTAATACCAGTGTCTAATTTTTACCTTTATAAATCTAACATTTAGTTAATGCCTTATATGTTAAAAGTTACATAATAAGACTATTCAGTAGTAAAAAAAATTTTTTAATTTTATATGTATGAATATTTTGCCTATGTGTATGTATTTGCATCGTGTTTGTGCCTGGTACCCACAGAGGTCAGAGAGGGTGTTGGATTCCCCAGAACTGGAGTTACAGATATTTGTGAGCTACTATGTGTGTTCTGGGATCCAAATGTTGGTCCTCTGCAAGAGCATCAAATGCTCTTAACCACTGTGCATTCTCTCCAGCTCTCAGTAGTTTTCTTTAAAAACAGTGAATAACTCATTCCCCCATTTCCAGAACAGCTTAAATTGGATTCCATTTTACCTCACAGTAGCATTCGCTAATTTATTCTCAGTCCTGTGTGACCTTAACAGACAAATGCCACGCCCTTTCTTATCTATACTTAGGTCAGTCTTTTCATCTGTGTTGTCTTCATACCACAGCATCTCACTCAAGTGTGCAACTCACCAGTTGATACAGGCGTTGCCTTTCTTTAACTCTTCCTGATATAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACAGCATCTCACTCAAGT
59.3
TCAAGTCAGAAAGGAAAGTCCCT
59.28
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACAGCATCTCACTCAAGT
59.3
GTCAAGTCAGAAAGGAAAGTCCC
59.18
141
PCR template sequence:
TCTTTTCATCTGTGTTGTCTTCATACCACAGCATCTCACTCAAGTGTGCAACTCACCAGTTGATACAGGCGTTGCCTTTCTTTAACTCTTCCTGATATAAGTAAGGACCAACTTCAGTTGCTACATGAATGTTTCCAGAAAAGGGACTTTCCTTTCTGACTTGACAGATTATGAACCAAGAGGTTTAAAGATCAACTAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
41
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(2), mmu-miR-148b-3p(2), mmu-miR-127-5p(2), mmu-miR-705(2), mmu-miR-155-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-19b-3p(1), mmu-miR-101a-3p(1), mmu-miR-322-5p(1), mmu-miR-130a-3p(1), mmu-miR-19a-3p(1), mmu-miR-152-3p(1), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-101b-3p(1), mmu-miR-709(1), mmu-miR-143-3p(1), mmu-miR-185-5p(1), mmu-miR-495-3p(1), mmu-miR-136-5p(1), mmu-miR-494-3p(1), mmu-miR-130b-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-192-5p(1), mmu-miR-183-5p(1), mmu-miR-215-5p(1), mmu-miR-301a-3p(1), mmu-miR-466d-3p(1), mmu-miR-690(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-669d-5p(1), mmu-miR-3087-3p(1), mmu-miR-466b-3p(1), mmu-miR-350-3p(1), mmu-miR-344-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCCTGATATAAGTAAGGACCAACT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.861311194
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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