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mmu_ciHipk2_2532
Basic information of circular RNA
PanCircBase ID:
mmu_ciHipk2_2532
mm39_Chr. Position ID:
chr6|38693156|38695688|-
Gene name:
Hipk2
Transcript:
ENSMUST00000161779.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
2532
Exon/intron sizes in nt:
2532
Flanking exon/introns:
chr6:38693156-38695688
Splice length:
2532
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTGATGAGAGCCAGCAAGAAACACCAGAAGATTGAAATGCTAAACACCACTTGGAAGTAGGGCTTGCCAGTGCACTGCCCTGGCCTGGTGCAGGGAGCAGCTCTTCCTACAAGAGCTGGGAACATCTGGCAGCACATGGAACACTCTGGAATTTGCTAAAAGCACTCTCTCTGGGCTCTGTGCCTCTTGACTCTTCCTAGTGCCTGTCCCTCTGGCACTCTAAGGTGGAGGCCTAGAGTCATGGTGCACCTAATGTCTTGAGTGCTTCAGTCATTTTACCAAAGAAAAAGTAGTTAAAGCACAGTAAGGAAGATTTTATTTGAGACCACAGGGATGGATACAAAGATGCTGCAGTGGAGGAGAAAGAGTGGGCTCAGCTCTACACATAGCATGGGCATCGAGAGTTTGTACCCAGGGAGTAGTGTCTAGGTCACATAGGGAAAATAGCAGATAGGAGATGGCAGAAACTGGAGGATTGTAGCTAAACAACCCTAACAAGATTCTCTGAAGGTGATTAGCCATCACCTAAGGGAGAGTGGGGGAGGAGGAATCTGGTCAGACATTAGGTCTAGTATTCTAGATATCAAGAGATGGGAAGAGTGTCCTCTAGCTAAAATGAATTAGCAAGGTTCTTAGCTAAAACTAGATTTTATAAAGAAGTGCACAGTTGAGCCTATGAAAAGGTTCAAAGTCCTGCCTAAATTTGGCCACACAGTCTCTGTCGTCTTTTCTAGAAACAGCAAACCTTTGAAGTTTCCATTTGATTACAAATTATCAAGATATATTTTTAAAAATCACTAAAAAATGTACTTTTTTGAAATTTCAGGTCAGAAACATAACTCATTAACTTAAAAATATGTTCTATAGTTATGCTTATCTTACTTCGACCTCTTTACTTAAAAGGTGCTAGACTCTCTAAGGACATAGCAGAGCCAAAGGTGTATTCTCTCTTGCCTTTGGTCTTTACTGCATGGGCACTAACCAGGATCAGCAAAGGGTTTGATGGGAAGAAAAGAAGGTAATTGTTCCCTAGAGTTACCAGAACTTAATATAGAATTTCAGGTCAATCAGTGAAGTTCTCTTTGATGGGCTAGAAAGATGGCTCACTGGTTAAGAGCACTGACTACTCTTCTGGAGGATCCAGGTTTAATTCCCAAACCCTATGGTAGCTCACAACCATCTGTAACTCCAGTCCCAGGGGACCTGATACCGTCTTCCTAACCTCCTAGGGCACCAGGGTGCACATAATGCAGACAAAACACTCATACACATGAAATGATGAATAAATCTAAAACTAATAATTAATTTTAAAAGAGTTAAACTATGTATGCTACAATACTCAGATTTGGCTTATCCATTTTTTTTTTAAATTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGAAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCTGCCTGTCTCTGCCTCCCAAGTGCTGTGATTAAAGGCATGCACCAGTGTACCTTCTTCCTCTTACATTTGTCCTAATTTTTTATTGCAATACAAATTAATTGATAAGCCTGCCATGAGGCTTAGGTTAAGATCCAAAAAGTTTTGTTTTTCTTTGTTTCCCATTGCACATCCCCAAATCTGAATAGCTATGGCCTTACCAGAAGAGAAAGAAGGGAACGCTGAGCCAAGGGGCAGTGGAGATCACTCCATCTGTAAATGCTTTCTACACAAGCACAAAGACCTACGTTTAGTCACTAGAACCTGCATAAAAAAGCTGAGCATGGCAGTACACACCTGTGCCGAGTGCTGAGGTTAGAGACAAGCAGACCCTGGGGAACTTGGGCAATCAGCTAAATCAGTGGGCTCCAGTAAGGGAACTGTCTTCTCTCAAAAAACAAGATGAACAGCTCTTAAGGAACATACACCTGAGGTTGACCTCTGGCATGCGCGTGTACACACATACACACACACACACACACACACACACACACACACACACACACACACCTGTTCATTAGTCTAGAAACTCTTACAAGTGTCTTAAGGTAGCAGTGTGGCTCCATGGCTCCAGGCTAGACTATCTAATTCAATCCCAGCACAGAATTGGGGGCTAGTAATTAAATAATAAACCAACCATCAGGAAGAAAATTCTCACCACTCCTAAAACAAATACCATTGAGGGAGGGCTAGATGAAGCCAAAGTCTGGGCTTTAGTCCTGAAGATTGTCTTATGCAGCTGTGTTGGATCTGACAGCTAAAATCCTGATCAGGACAGCTGTCTCTAAAAGACCAGCTCTCAAAAACAGGTATATGGACCCAAACCAGAGCCCAGAGAAGGCCCAGCAGAGGTCCTAACCTCAGTCCTGAATGAAGGCCTCTAGAAGCACTGTATTTTCTGTCACAAGGGAGGTCAACTGTCATGGGCTTCAGATTTTCTCCTGTGGAGATGTGGTAACGTTGGTGTTTTATTTTAAAGTTAGATGGAGATGTAGGGCCAGACCCTCCTTGTAAATCGTGTTGTTTTGTCATTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTGGAGATGTGGTAACGT
59.72
TGGCAAGCCCTACTTCCAAG
59.96
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTGGAGATGTGGTAACGT
59.72
CTGGCAAGCCCTACTTCCAA
59.96
171
PCR template sequence:
TCTCCTGTGGAGATGTGGTAACGTTGGTGTTTTATTTTAAAGTTAGATGGAGATGTAGGGCCAGACCCTCCTTGTAAATCGTGTTGTTTTGTCATTACAGGTAGGTGATGAGAGCCAGCAAGAAACACCAGAAGATTGAAATGCTAAACACCACTTGGAAGTAGGGCTTGCCAGTGCACTGCCCTGGCCTGGTGCAGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
27
Interacting miRNAs (#binding sites)
mmu-miR-1187(4), mmu-miR-9-5p(2), mmu-miR-574-5p(2), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-205-5p(1), mmu-miR-152-3p(1), mmu-miR-148a-3p(1), mmu-miR-18a-5p(1), mmu-miR-328-3p(1), mmu-miR-709(1), mmu-miR-326-3p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-149-5p(1), mmu-miR-434-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-218-5p(1), mmu-miR-324-3p(1), mmu-miR-34b-5p(1), mmu-miR-297a-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-532-5p(1), mmu-miR-669d-5p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGTCATTACAGGTAGGTGATGAGA
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
0.775726923
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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