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mmu_ciScg2_2936
Basic information of circular RNA
PanCircBase ID:
mmu_ciScg2_2936
mm39_Chr. Position ID:
chr1|79414736|79417672|-
Gene name:
Scg2
Transcript:
ENSMUST00000185234.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
2936
Exon/intron sizes in nt:
2936
Flanking exon/introns:
chr1:79414735-79417672
Splice length:
2936
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGACTGCTTTCTCTTCTATTTACTGGAAAGTTCTCATTTGAGTGTCCCTCCCTGTTTTCCCAGATGAGAGGAAAAAGACCGTTGGCAAGCTTATATTGATAGAATAACCGGACAACCTGCTGCTTTTTAGGCAAGGATACTCTATACGTGTGTGCCGAAATGAGGGGCTCTGTGATTTACAGGACTTGTCAGAGAATATGCATTAACTATAATGTTACTGAGTAAAACTGTATGCAAGGAGAGCAGAAAAGTTGAGAATTTTAACGTCAACATGCCGATTAATGTAAAGTTAACCAAACCTTATGTTTTGATTCTTTCTCTAATGTGTTCTTTTTCTCCCAAGAGTCAGATATAGAACCAAAAATATAATTTTATATGCTTAATAATCTTAACAGACAGTTTAAAAGGATTCAAATGTCATCAATCATATGAGTCACAGAGGCAAAAAATTTAGATTTGTTTTCTTTCTTTGATATTCACCTTAAGGGAACTCTGAATTAATTATTAATTATTTTATGAACTGGTATATTCCAGAAGGGCTTATGTTATTATGTGCTAATTTTAGTCTTGAGAAAGCAGCTTAGAATAATTTTGAACATTGACATTTTCCCCTTTTCAAAGATGAACTATCACTTTGTGGGAAAGGTTCATGTTACTAGGAATCACAGAGAAATGATAACTTTGAATCCAGGGAAGAAAATATATAGATCGGTATGGACTGTGATTGTAATTTTTATGCGTTGGTTGGAAAAGCTGATATGTTACTTGCTGAAGAGGTTGATTGAAGCAAATTTATTTTTGTTTATCCTAACTAGGTGGGTTGTTTGAATCAGATTTACTCACATGTGTTGATGGTTCAGTGTCAATGTTCCAGCTGATTTCATAGGAAAGATGTTTTTTACTGTAAGGGGCATCAATAATAGCTGTCTGAGGAGACACAATGTTCCTACCATTTAGACTTCAGAAAATTAAATTTTAAATCAAACACTGTGTAAGGTGTTAGAACTATTAAAGCCATCTTCACTGCTTGCAAGAGCAGCTCCTAGAGAAATGAAGTCCTTTGAGTGTTAGAAGCAATAACGGTGTCATCTAAAGTAAACCAGAGTCAGCGACGAGTCGGCCATGCATGTTAGGCTGTGGTTCAAACTGCAATGTGCATTCTTTCTCTAATTCTACAGAAAAACCTCCCTTCAAAGTAGTGGGTTCTCAGATAATCACGTAATCCATATGCTAAGATGTGTTAAGAGTATGTCAAGATAATGATCTTAAAGCAAATGCACTCAATATGGCTTTCAAGATAACATTTAACATGACAGTAGTGAAAGCTGATTGCCAAAGCTAAATCAATCCTGAAGTAATATGAAATATATTATATACATATAGAACCCTTTTTATTTAAACTTCATTATATCACTCACAAGTTTATGGGTACAGTTTCTTGAAGAAAGCATTTGTTTATTTTGGAAATGTTCTGTGTATGCTTAAATAGCCTACTTGGTGGTAATCTTAATCAGCCTATGTATGTAAGCAAAGGAAGTTTCTATACCTACAACCTATTGACAGTTCTAAAAAAATTATAGCATTCATTATCAGCAAGATCTGTTAAGCAATATCTAGATGCTTAATCTAACAGGAAATCATTTTCACATAACTTTGCTTATTTGCCACAAACCAGGATGTATCGAAGACATGAATAAACTTATAGATTTATTTACATGCATTTGTTTACAAAAGAAATTTCAAGGATTGAAATAGCTTCTCCAATTATCAGCAATGCCAAGCAGGAAGTGTACAAGTGATTCCTCTTACTAATCCATCTGTGAGATTTTAAAAATATTGGAGAAAAAAATGAATGAAGGTTTTTTTACCTTTTTTTCTTTTCTTTTCTTTTTTAAGTAGGAAGAATTCAACACATCGTCTGTGTTTATCTAAATTGGGAGTTACATAGTGGTTATTTTCAGATTTTCTAACAGTGTGTGTGAGTCATTTAAGATTTCACAGGTCCCTACAAAAATAGGCAGAGACATAAGACAAACTGAATCTGAACACTCAAAAGCTTAGAAATAGACTAGTTAAGTAAACTTATGTTCTCCCTGTAGCATCTGTTTATTTACTATACACTAGAGGAAAGATGAAAAATATAACCCTAATTGCATTTTGTAAGTCAGCCATAATACAATTATTTGAAGATTGGCACATAGAAAAATTTAAAAGTGTAGGTTATTAATTTTGCAGGCTTCCACAAAAAGCTTCCATGGTTTAGTATACTAGCTGAGACCTGGGAGGACCCAGCTGCTGGGGATTAGTAGCTAATTTCTGGATTTATCATTCAGTGCGTTGACCAGGATCCATGCCCAAGGTACTCAGTGTTACTAACACTAATATGCTATATTACGTCATCATATAGCTGTTGCATTTCTGCAACAAAATTGGAAGTCTAACTCAGAGAATAAATCAAACAGGCTATTATTTTGACACAATCTTATGGGATAATTATATGTATGTATGTATGTTAATATATATATTATGTGTGTGTGTCACGAGAAATTATTTCCAAATTGATTTTAATAGAATGCTCTTTGAAGAAATTATAATACTTTACAAAGTCTTGTTTTGTTGAAAAGAAACATGATAAAAATCAAGCTGCTAATTTGTAAATGAAAGACACACATTTAGAGAAGCCCCCGTCAATGTTTTTCTTCAAAAGAATGTCAGACAAGCTTGATGCAAATGAGTAATGACTTTCCTATAGATTCCTATGGTTAGCTTGTGGGGGTCATATAGGAAATATTCATCAACTTTAAATAGTTTTCCTAGGTGTAATATTAAATCATTTCTTCTCCATTCTCCATTGTAGCTTGTGTTTTCCTTTTCTTCCCATCGTGCCTTCAAGCTCGTATCATCTGTGATAATTTGTATTTTCTATGTTTTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTGCCTTCAAGCTCGTAT
59.47
AGCTTGCCAACGGTCTTTTTC
59.93
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCGTGCCTTCAAGCTCGTA
59.47
AGCTTGCCAACGGTCTTTTTC
59.93
148
PCR template sequence:
TTTCTTCTCCATTCTCCATTGTAGCTTGTGTTTTCCTTTTCTTCCCATCGTGCCTTCAAGCTCGTATCATCTGTGATAATTTGTATTTTCTATGTTTTCAGTAAGACTGCTTTCTCTTCTATTTACTGGAAAGTTCTCATTTGAGTGTCCCTCCCTGTTTTCCCAGATGAGAGGAAAAAGACCGTTGGCAAGCTTATATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(2), mmu-miR-124-3p(1), mmu-miR-135a-5p(1), mmu-miR-205-5p(1), mmu-miR-185-5p(1), mmu-miR-434-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1), mmu-miR-362-5p(1), mmu-miR-466d-3p(1), mmu-miR-325-3p(1), mmu-miR-802-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-466b-3p(1), mmu-miR-697(1), mmu-miR-1904(1), mmu-miR-146b-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTATGTTTTCAGTAAGACTGCTTT
siRNA sets
AAAGCAGTCTTACTGAAAA, AAGCAGTCTTACTGAAAAC, AGTCTTACTGAAAACATAG
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
0.882179557
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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