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mmu_ciMap4k5_3991
Basic information of circular RNA
PanCircBase ID:
mmu_ciMap4k5_3991
mm39_Chr. Position ID:
chr12|69865585|69869576|-
Gene name:
Map4k5
Transcript:
ENSMUST00000171211.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
21
Exon/intron offsets:
0
Genomic length:
3991
Exon/intron sizes in nt:
3991
Flanking exon/introns:
chr12:69865275-69869576
Splice length:
3991
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGCATGATGGTGAAAACCATAGGCAAGCAAAGAAATGTAATTTTAGTGTAGACTGTATGACTATGCCGTTTGTTGTTTGAAAAAGGATTGGGTCTTCTGTGAGGGCTACATTTCCCAGCCCCCTTCCTGCATCTGGACACAGAGGGAGGGGAAGATGATGATCTGCTGAGCCCATTTCCTTCCACAACTTCTAACATTGCTGGCTGCACTTTGTTTGCCTTCCTTTGAGTGTTAGCAGTGCAGCTGGAGGAAGCAGAGGGTCAAGCTACCTCCTTTCTCCATGAACTCTAGCAAATAACCCATTCTTAGCCTCAATTTTCTTAATTATCAAAACAGAACAGTGACATTAAAAACAAAAAACAACAACAAAAGTCTCATGAGGTTGTTGTGAGGATTAAGTAAAATAACATTGCAGTGCTAAATTATAAAGTCTTATACAAGTGTCGTTCTGGATCAATATAAAGTACCTTAGACTGGACCTTCTCACCCAGGGGTCTGAGGTGATAGATAGCTCAGTCTGTAGAGTGCTTTACAGCAAGCATGAGGGCCTGTGTTCTGTCCCCAGCATCCATGCAAAGAGCCAGGTGTGATGCACACTTATAATTCCAGTAGTAGGGAGGCAGACGCAGGAGGCTCCTTGGGCTCACTAACCAGCAAACCTAGCCTGGGAGGTGAGTTCCAGACCAGGAAGAGAACCTATCTCATAAACAAGAGAGACATTGACTAAAGAACAGCATTCAGTATTGATCTCTAGCCTACTCAACACATGGGTCATACACGCCAGCACTCACACACACATACACACACACAAGCACGCAAAGCTTATCTAAACAAGGTGATTCATTCCAGAACAACCTGTTCTGATTTTAGCATTGTCAGGTTTTTTGGTAGCTGGTGGTAATGAAAGTATCAGATATGTTACCATACCTTTAGACTTTTGTCTTGTAGTTCTTATCCAGTGTCTTAGTTGCTGTTCTGTTGCTGTGAAGAGACACCATCACCAAAATAACTCTTATAAAAAGAAAACAATCAACTGGGGTCTTCCTTACAGTTTCAGAGGTTTAGTTGATTATCATCACAGCAGGGAGCAAGGCAGCATGCAGGAAGGTACCAGATCAGTAGCTGAGGGCTACATCTAGGAGACTAGAGCTGGCATGGGTAATAAGGCCAAACTGACTAATCCTTCTAATCCTTTCAAATACTGTCGCTCCCTAATGACTAAGCTTTCACATACATGAGTCTATGGGACCCATTTTTAGTCAAACCACCACACCCACCAAACAATATTTTCTTACCCATTAGTCTTACAAAGCTACCTGGAGGCTAACTGATTGATTTGATTTGTAGTACAAGATGTCTAATTATTATTTCTTCAGGAATCTGCATTTGAGCTATAACAATGTCTATGAAAAATACAATCTTGTGTATAAATGTCTTATAAGAAACAGAGATCCTAGCCGGGTGTGGTGGCACACGCCTTTAATCCCAGCACTTGGGAGGCAGAAGCAGGCAGATTTCTGAGGCTAGCCTGGTCTACAAAGTGAATTCCAGGACAGCTAGGGCTACACAGAGAAACCCTGCCTCAGAAAAAAAAAAAAGAAAGAAAAGAAACAGAGATCCTATAAAGTAATGGTTCTCAACCTTCCCAATGCTGTGACCCTTTTTATATAGTATCTTAGTTAGGCTTTATTTCTGTGAAGAGACACCATGTCCAAAGTAACTCTTATAAAGGCTAACATTTAATTGGGGCTAGATTACAGTTTCAGAGGTTCAGTCCATTATCATCATGGAGGGAAGCATGGCAGCATCCAGGCAGACACGGTGCTAGAGGAGCCATGAGGTCTGTGTCTTGATCAGAAGGCAGCTACAAGGAGACTGGATGCCAGAAGGATGCTCACTTCCACACTAGGTGTAGCTTAAGCTTCTATATGAGACCTCTGAGCCCACCTCCACAGTGACACACGTCCCCCAACAAGACCATACCTCCTAATAGTGCCACTCCCTATGGGCCAAGCATTCACACAAGTGAATCGGTGGGGGCCATACCTATTCTAACTACCACATACTGTTCCTCGTATTGTGACCTTGAACCATAAATTATTTTTGTTGCTACATAATAACTATGATTTTGCTTAGTTATAATGTAAATACCTGTGTTTCCCAATGGTTTTAGGTGGCCCCTGTGAAAGGGTCATTCTATCCCCTAAAGGGGTTGTGACCCACCCGTTGAGAACTGCTGCTCTTAAGAGTACTTAATCTCTTTGGTTTTAATTATGATTAGCCTGTCATTTTTTATTTTATTTTTATTTTATTCATATATTACTCTTGTGAAAAGCAATAAACCCAATTCTACTTGAGTGACTTCTAAATGTTTTTGCCAGACTTAATTCACTTTATTTTTCTTACATAAAAACCCACATAGAGCCAGGGCAGGAGCCTGGGTCCTCTGAACCGGAGTGTGTATGTGTTTTCACAGATGGTCAGGGAAATCCTGAAAGAGAAACATGGTGAGCACAGTCTCTTTCCAGCTCTGGGGCCAAGTAGCTATAGATCTTGGAGAAGACATCAGAGGTGAAGTTGCCCAGGGTGGAGTGCAGCAGTCACCAATACCCCGGAACAACATCAGCTTCTCAGGCACTGCAGCAGGGATGGGGTGCAGCAGCACAGAGCCTCAGGAGCCTCTCACAGTGCACGAGATGCTGTGGGGCTTGCCTGTCTTCCCCCAAGTGCTCTCTGGACAGGGAGAGTGTGAAAACCAAGATGTTGTCCCCTCAGACGGCAGTGGCCTCCTGCCTGGAGCAAGTAACACCAAGACCAGTGTGACCATTTAGTGCCCAGTAGTGACAAAAGCGTTGAAGCTGGCCCAATGCACTGCCCAAGTCACTTCTGCTCTGGCAGGATCTCTAGAACCGCATCCTTGTATCCTTTAGGGATGCTCTAGGAAAAATCAGGGATCACAGATTTACTGGTGGCAAGGAGACCAGGCACATGCCTCCCAGCCCTGGAACTTGACCTTCATGTCCTTGACCAGGCGGTCCAGTTTGGTGAAGGATCCACTCCTTGTCTTCTACCTTACCTCCATGAGTGCCATGGCTCCTATGATCACTGAAAGCTTCCATGGCCTCTCAAGCCTGAGCCTCCCTATTCCCCAGCCCCTCCCGCTACAGCTGAGCAGCAATTCTGCATTCTGTCAGTAGCACAATATCTCTAACTCTTGCCACTTTTATCATTAGACATAGCTTTAAAACCATACATAGTACACCTTATATTCTCATGAGATAACATGGGATGGCAGGGAATAGTTTTTTATGAAGTCATTTCTGTAATGCAGTTATAATTAATTACTCCTAAAACAGAGCCTAAGTATCAGAGCAATTCTGTGTGGATAGAAAGAGGGGAAAAAGGGCTGTGTTGGCCAGATGTTTCTTTTCTGAGAAAACACAGAAATTGTTGTGAGGATAAATACCTGTGTGGTGTGTTTCTGCTGGTAAGGGGCTGTGTTGTCAGGATCGGGTGGTGTTTATGCGTATCGCCTGCCGAGCGTAGCTACAGTGTGACGTGTGGGTCGTCCATCACTATACTAGGGCTCATAGCACTGGCTTGTTTCACTTTGTCTTTTATTACAGTCTATGCATTTAAATTTTATTCACAGTTTTAGGGGAAGATAAGTCTGTGGGTCGCTGATAGATAAACCTGTCCCAGAGAGCTAAGCGCAGCATTGTAGACCTTTCTGTTTGTCTGTACTCCTGTAACTGCTTGTAACACGCGTGTGCAGTGCTTAACAGTTTCTCCTCCTCCACTAGGATCAAGCAGACGACATTTATTCTCCCGACTGATTCGTCAAACATGTCTAAACAGAATTATCCACTTGCTTAAAAATAAGTTTATCCATTACTTTCAAAATAACACTAACCAAGTCTGTTTGTTGTGTTTTGCATGTTTTTCTGTTTTGCTTGGTCCTTGAACCTTACTGGACTCGCCACCTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTGCTTGGTCCTTGAACC
59.83
AGACCCAATCCTTTTTCAAACAACA
59.81
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTTCTGTTTTGCTTGGTCCT
60.02
CCTTTTTCAAACAACAAACGGCA
59.57
140
PCR template sequence:
CCATTACTTTCAAAATAACACTAACCAAGTCTGTTTGTTGTGTTTTGCATGTTTTTCTGTTTTGCTTGGTCCTTGAACCTTACTGGACTCGCCACCTTAGGTATGCATGATGGTGAAAACCATAGGCAAGCAAAGAAATGTAATTTTAGTGTAGACTGTATGACTATGCCGTTTGTTGTTTGAAAAAGGATTGGGTCTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
42
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(2), mmu-miR-370-3p(2), mmu-miR-297a-5p(2), mmu-miR-669d-5p(2), mmu-miR-3470b(2), mmu-miR-670-5p(2), mmu-miR-16-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-17-5p(1), mmu-miR-7b-5p(1), mmu-let-7b-5p(1), mmu-miR-34c-5p(1), mmu-miR-223-3p(1), mmu-miR-34a-5p(1), mmu-let-7c-5p(1), mmu-miR-322-5p(1), mmu-miR-106b-5p(1), mmu-miR-33-5p(1), mmu-miR-217-5p(1), mmu-miR-7a-5p(1), mmu-miR-324-5p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-381-3p(1), mmu-miR-30d-5p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-22-3p(1), mmu-miR-183-5p(1), mmu-miR-34b-5p(1), mmu-miR-224-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-190b-5p(1), mmu-miR-207(1), mmu-miR-484(1), mmu-miR-3065-5p(1), mmu-miR-193b-3p(1), mmu-miR-574-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCGCCACCTTAGGTATGCATGATGG
siRNA sets
TCATGCATACCTAAGGTGG, CATCATGCATACCTAAGGT, CCATCATGCATACCTAAGG
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
0.772269632
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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