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mmu_circCct8_1509
Basic information of circular RNA
PanCircBase ID:
mmu_circCct8_1509
mm39_Chr. Position ID:
chr16|87281691|87291315|-
Gene name:
Cct8
Transcript:
ENSMUST00000026704.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,776,1030,1432,1629,1791,2730,4003,5517,5681,6498,8903,9533
Genomic length:
9624
Exon/intron sizes in nt:
120,165,72,116,88,67,179,138,62,181,150,80,91
Flanking exon/introns:
chr16:87280953-87281691|chr16:87291315-87292616
Splice length:
1509
Other database IDs:
circBase: hsa_circ_0061377, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_35154
Human Ortholog IDs:
Mature spliced Sequence:
CATTTCTCGGGATTAGAAGAGGCTGTGTATAGAAATATACAGGCCTGCAAGGAGCTTGCTCAGACTACTCGCACAGCGTACGGACCAAATGGAATGAATAAAATGGTCATCAATCGCCTGGAGAAGTTGTTTGTGACAAACGATGCAGCGACTATTTTAAGAGAGCTAGAAGTGCAGCATCCTGCTGCAAAGATGATAGTGATGGCCTCTCATATGCAAGAACAAGAGGTTGGTGATGGCACAAACTTCGTTCTGGTGTTCGCTGGGGCTCTTCTGGAACTAGCTGAAGAACTTCTGAGGATTGGCCTGTCAGTATCAGAGGTAATATCGGGGTATGAAATAGCTTGCAAAAAAGCTCATGAGATCCTTCCTGAGTTGGTATGTTGTTCTGCCAAAAACCTTCGAGATGTTGATGAAGTGTCCTCTCTGCTTCGAACCTCCATCATGAGTAAGCAGTACGGCAGCGAGACGTTTTTGGCCAAGCTTATTGCTCAGGCTTGTGTTTCTATCTTTCCTGATTCTGGCAATTTCAATGTTGATAACATCAGAGTATGTAAGATTCTGGGCTCTGGTATTTATTCATCCTCAGTATTACATGGCATGGTTTTTAAGAAGGAAACTGAAGGTGATGTGACATCTGTCAAAGATGCAAAGATAGCTGTGTACTCTTGTCCGTTTGATGGCATGATAACAGAGACAAAGGGGACCGTGCTGATTAAGACTGCCGAGGAGCTAATGAACTTCAGTAAGGGAGAGGAGAACCTCATGGATGCTCAGGTGAAGGCCATTGCAGGCACTGGTGCAAATGTCATAGTAACAGGCGGCAAAGTGGCGGACATAGCTCTTCATTATGCTAACAAGTACAATATCATGTTGGTGAGACTGAACTCAAAGTGGGATCTCAGACGACTCTGTAAAACAGTTGGTGCCACAGCTCTTCCAAAATTGACTCCTCCCGTCCAAGAAGAAATGGGACATTGTGACAGTGTTTACCTCTCAGAAGTTGGAGATACACAAGTGGTTGTTTTTAAGCATGAAAAAGAAGATGGTGCCATTTCTACTATAGTTCTTCGAGGTTCTACAGACAATCTGATGGATGACATAGAAAGGGCAGTAGATGATGGAGTTAATACTTTCAAAGTTCTCACAAGGGATAAGCGTCTTGTACCTGGAGGTGGAGCTACCGAAATTGAATTGGCTAAACAAATCACATCATATGGAGAGACGTGTCCTGGGCTTGAACAGTATGCTATTAAGAAGTTTGCTGAAGCGTTTGAAGCGATTCCACGGGCACTGGCAGAAAATTCTGGCGTGAAGGCCAATGAAGTTATCTCTAAACTTTATTCCGTACACCAAGAAGGAAACAAAAATGTGGGGTTGGATATCGAGGCTGAAGTCCCTGCTGTAAAGGATATGTTAGAAGCCAGTATTTTAGATACTTACTTGGGAAAATACTGGGCTATTAAACTGGCCACTAATGCTGCAGTCACTGTACTAAGAGTGGATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACTGGCCACTAATGCTGCA
60.25
CATTCCATTTGGTCCGTACGC
59.94
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAACTGGCCACTAATGCTGC
59.11
CATTCCATTTGGTCCGTACGC
59.94
141
PCR template sequence:
GGATATGTTAGAAGCCAGTATTTTAGATACTTACTTGGGAAAATACTGGGCTATTAAACTGGCCACTAATGCTGCAGTCACTGTACTAAGAGTGGATCAGCATTTCTCGGGATTAGAAGAGGCTGTGTATAGAAATATACAGGCCTGCAAGGAGCTTGCTCAGACTACTCGCACAGCGTACGGACCAAATGGAATGAATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-200c-3p(2), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-27b-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-30c-5p(1), mmu-miR-433-3p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-452-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGTGGATCAGCATTTCTCGGGAT
siRNA sets
ATCCCGAGAAATGCTGATC, TCCCGAGAAATGCTGATCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCT8_1509_ORF_1
1.0271
0.160765418
0.999999989
2925
ORF sequence:
ATGAATAAAATGGTCATCAATCGCCTGGAGAAGTTGTTTGTGACAAACGATGCAGCGACTATTTTAAGAGAGCTAGAAGTGCAGCATCCTGCTGCAAAGATGATAGTGATGGCCTCTCATATGCAAGAACAAGAGGTTGGTGATGGCACAAACTTCGTTCTGGTGTTCGCTGGGGCTCTTCTGGAACTAGCTGAAGAACTTCTGAGGATTGGCCTGTCAGTATCAGAGGTAATATCGGGGTATGAAATAGCTTGCAAAAAAGCTCATGAGATCCTTCCTGAGTTGGTATGTTGTTCTGCCAAAAACCTTCGAGATGTTGATGAAGTGTCCTCTCTGCTTCGAACCTCCATCATGAGTAAGCAGTACGGCAGCGAGACGTTTTTGGCCAAGCTTATTGCTCAGGCTTGTGTTTCTATCTTTCCTGATTCTGGCAATTTCAATGTTGATAACATCAGAGTATGTAAGATTCTGGGCTCTGGTATTTATTCATCCTCAGTATTACATGGCATGGTTTTTAAGAAGGAAACTGAAGGTGATGTGACATCTGTCAAAGATGCAAAGATAGCTGTGTACTCTTGTCCGTTTGATGGCATGATAACAGAGACAAAGGGGACCGTGCTGATTAAGACTGCCGAGGAGCTAATGAACTTCAGTAAGGGAGAGGAGAACCTCATGGATGCTCAGGTGAAGGCCATTGCAGGCACTGGTGCAAATGTCATAGTAACAGGCGGCAAAGTGGCGGACATAGCTCTTCATTATGCTAACAAGTACAATATCATGTTGGTGAGACTGAACTCAAAGTGGGATCTCAGACGACTCTGTAAAACAGTTGGTGCCACAGCTCTTCCAAAATTGACTCCTCCCGTCCAAGAAGAAATGGGACATTGTGACAGTGTTTACCTCTCAGAAGTTGGAGATACACAAGTGGTTGTTTTTAAGCATGAAAAAGAAGATGGTGCCATTTCTACTATAGTTCTTCGAGGTTCTACAGACAATCTGATGGATGACATAGAAAGGGCAGTAGATGATGGAGTTAATACTTTCAAAGTTCTCACAAGGGATAAGCGTCTTGTACCTGGAGGTGGAGCTACCGAAATTGAATTGGCTAAACAAATCACATCATATGGAGAGACGTGTCCTGGGCTTGAACAGTATGCTATTAAGAAGTTTGCTGAAGCGTTTGAAGCGATTCCACGGGCACTGGCAGAAAATTCTGGCGTGAAGGCCAATGAAGTTATCTCTAAACTTTATTCCGTACACCAAGAAGGAAACAAAAATGTGGGGTTGGATATCGAGGCTGAAGTCCCTGCTGTAAAGGATATGTTAGAAGCCAGTATTTTAGATACTTACTTGGGAAAATACTGGGCTATTAAACTGGCCACTAATGCTGCAGTCACTGTACTAAGAGTGGATCAGCATTTCTCGGGATTAGAAGAGGCTGTGTATAGAAATATACAGGCCTGCAAGGAGCTTGCTCAGACTACTCGCACAGCGTACGGACCAAATGGAATGAATAAAATGGTCATCAATCGCCTGGAGAAGTTGTTTGTGACAAACGATGCAGCGACTATTTTAAGAGAGCTAGAAGTGCAGCATCCTGCTGCAAAGATGATAGTGATGGCCTCTCATATGCAAGAACAAGAGGTTGGTGATGGCACAAACTTCGTTCTGGTGTTCGCTGGGGCTCTTCTGGAACTAGCTGAAGAACTTCTGAGGATTGGCCTGTCAGTATCAGAGGTAATATCGGGGTATGAAATAGCTTGCAAAAAAGCTCATGAGATCCTTCCTGAGTTGGTATGTTGTTCTGCCAAAAACCTTCGAGATGTTGATGAAGTGTCCTCTCTGCTTCGAACCTCCATCATGAGTAAGCAGTACGGCAGCGAGACGTTTTTGGCCAAGCTTATTGCTCAGGCTTGTGTTTCTATCTTTCCTGATTCTGGCAATTTCAATGTTGATAACATCAGAGTATGTAAGATTCTGGGCTCTGGTATTTATTCATCCTCAGTATTACATGGCATGGTTTTTAAGAAGGAAACTGAAGGTGATGTGACATCTGTCAAAGATGCAAAGATAGCTGTGTACTCTTGTCCGTTTGATGGCATGATAACAGAGACAAAGGGGACCGTGCTGATTAAGACTGCCGAGGAGCTAATGAACTTCAGTAAGGGAGAGGAGAACCTCATGGATGCTCAGGTGAAGGCCATTGCAGGCACTGGTGCAAATGTCATAGTAACAGGCGGCAAAGTGGCGGACATAGCTCTTCATTATGCTAACAAGTACAATATCATGTTGGTGAGACTGAACTCAAAGTGGGATCTCAGACGACTCTGTAAAACAGTTGGTGCCACAGCTCTTCCAAAATTGACTCCTCCCGTCCAAGAAGAAATGGGACATTGTGACAGTGTTTACCTCTCAGAAGTTGGAGATACACAAGTGGTTGTTTTTAAGCATGAAAAAGAAGATGGTGCCATTTCTACTATAGTTCTTCGAGGTTCTACAGACAATCTGATGGATGACATAGAAAGGGCAGTAGATGATGGAGTTAATACTTTCAAAGTTCTCACAAGGGATAAGCGTCTTGTACCTGGAGGTGGAGCTACCGAAATTGAATTGGCTAAACAAATCACATCATATGGAGAGACGTGTCCTGGGCTTGAACAGTATGCTATTAAGAAGTTTGCTGAAGCGTTTGAAGCGATTCCACGGGCACTGGCAGAAAATTCTGGCGTGAAGGCCAATGAAGTTATCTCTAAACTTTATTCCGTACACCAAGAAGGAAACAAAAATGTGGGGTTGGATATCGAGGCTGAAGTCCCTGCTGTAAAGGATATGTTAGAAGCCAGTATTTTAGATACTTACTTGGGAAAATACTGGGCTATTAAACTGGCCACTAATGCTGCAGTCACTGTACTAAGAGTGGATCAG
Peptide sequence:
MNKMVINRLEKLFVTNDAATILRELEVQHPAAKMIVMASHMQEQEVGDGTNFVLVFAGALLELAEELLRIGLSVSEVISGYEIACKKAHEILPELVCCSAKNLRDVDEVSSLLRTSIMSKQYGSETFLAKLIAQACVSIFPDSGNFNVDNIRVCKILGSGIYSSSVLHGMVFKKETEGDVTSVKDAKIAVYSCPFDGMITETKGTVLIKTAEELMNFSKGEENLMDAQVKAIAGTGANVIVTGGKVADIALHYANKYNIMLVRLNSKWDLRRLCKTVGATALPKLTPPVQEEMGHCDSVYLSEVGDTQVVVFKHEKEDGAISTIVLRGSTDNLMDDIERAVDDGVNTFKVLTRDKRLVPGGGATEIELAKQITSYGETCPGLEQYAIKKFAEAFEAIPRALAENSGVKANEVISKLYSVHQEGNKNVGLDIEAEVPAVKDMLEASILDTYLGKYWAIKLATNAAVTVLRVDQHFSGLEEAVYRNIQACKELAQTTRTAYGPNGMNKMVINRLEKLFVTNDAATILRELEVQHPAAKMIVMASHMQEQEVGDGTNFVLVFAGALLELAEELLRIGLSVSEVISGYEIACKKAHEILPELVCCSAKNLRDVDEVSSLLRTSIMSKQYGSETFLAKLIAQACVSIFPDSGNFNVDNIRVCKILGSGIYSSSVLHGMVFKKETEGDVTSVKDAKIAVYSCPFDGMITETKGTVLIKTAEELMNFSKGEENLMDAQVKAIAGTGANVIVTGGKVADIALHYANKYNIMLVRLNSKWDLRRLCKTVGATALPKLTPPVQEEMGHCDSVYLSEVGDTQVVVFKHEKEDGAISTIVLRGSTDNLMDDIERAVDDGVNTFKVLTRDKRLVPGGGATEIELAKQITSYGETCPGLEQYAIKKFAEAFEAIPRALAENSGVKANEVISKLYSVHQEGNKNVGLDIEAEVPAVKDMLEASILDTYLGKYWAIKLATNAAVTVLRVDQ
IRESfinder result
IRESfinder score
0.513735913
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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