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mmu_circ4933427D14Rik_2099
Basic information of circular RNA
PanCircBase ID:
mmu_circ4933427D14Rik_2099
mm39_Chr. Position ID:
chr11|72066028|72093380|-
Gene name:
4933427D14Rik
Transcript:
ENSMUST00000142530.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,284,1458,3202,5200,14345,16075,16216,19357,20580,23160,27209
Genomic length:
27352
Exon/intron sizes in nt:
9,09,01,20,16,72,24,21,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:72060685-72066028|chr11:72093380-72098021
Splice length:
2099
Other database IDs:
CIRCpedia: MMU_CIRCpedia_27992
Human Ortholog IDs:
Mature spliced Sequence:
GAAGATTTGCCTGATAACTAGGCAGCCGCTCATGTTCATCATCTGACCTGATGGGACCAAGCCAGCCAGCTTCTACATGTGTTCATCTAGCACCCAGTCTCCAACTGGATGCCATGAGTGACCCCAGGAACCTTCAGCCCCAGAACCAGCTGCAATTTAATAGGAATGTTCCTACAAATCCCAGCAACTTGGCAGTCCGGTACTCTTGCCCACATGGAATTAAAATTGAAAAACTGAAACACTCATACAATGAATTGAATCATGGTAAAGACTTGGATTTTAAAGCTGGAAATGAATTAAGCAGTTCTGTCTCATTTTCTGTCATATCAGAAGAGAGGCTTAGCTATGCTGTCCACCTAGCCAAGAGAGATGTAAAACGAAGACAATTTGAAGAACACGTGAAAGATCATCTCAGAAGTCTGCCCCATAGCTCTCACAAAGGTATGCACACCAAGGTGGAAAGGAAGGACTCCAAGAGTCAGGATGTCTGTCATTGCAGCCACCAGCCGTCCAGAGTAAGCCTCTCCAGCTCGGGCGCTAAGGTGTATGTGTACACATCTCAGCCAGGACGAGCTGATCTTACTGTGCCAAATTCACCACCTACCCATGATCCAGGACTTCAGCCGCAACCCAGAATAGAGGAGAACAAAAACCTGTGGGAACAGAAAGGCCTGCTAGAAGTTCAGCGACTCCAAAAGGAATTGAGTGGTTGTATCCGTAAGATAGAAGCACTAACGAAAAAAGATAGACTAGAAGAGGCTTTGGATCCAGATGAAGAGCATCGAATCCGAGTCAGGAGACAGGAGCAAGCCGTGCGCTGTGCCCGCATGCTCTACGTTCTTCAGCAGCAGGTAAAAGAAATCCAGGAAGAATTGGATAAATTGAGTCCACAAAAAATTAAACATACTAAGAAGTCATGGGCAGTGTCTAGGCTGGCAGCCGCTCATCGAGCAGCCATCCGGGCCTTGCAAGTGTTTGTCACTCAGTTTACTGACCGAGGGGAGCACCCAGTTCCTGCTCGGTGTAGGGAGCTGGGCAGCCTTATTCGTCAGCTGTCGCTGTGTTCCGCCAAGCTGGATGCTGATCCTTCTGTGCCAGACGTGGTCATAGACATCTTGCAGCAAATCGAGTTCCAGTCAGTGAGACCATAAGGCAAAACTACTGCCTTGCCTGGTAACTTGGTGCTTTGCAAAGAACGCTTTGGAGTCTCTCCTGGAAAAGAAATTGTCACCTAAAAAGGCAAAGAAATGTTTCACAGAAATTCGGAGCAGATTTCCTGTTGGTAGCCAAAAGATCTTAGAGAGATGGCCAACTGTACTGCCCAAAAGTGAGAGGAGACCCTTGGTCACAAAGGAGACATTCCCACAGGAAACCAGTCGACCTCCTGTGGCAAAGAGGCTTCTTGCAGCTATGTGTCAGCCTGATGGGGAGCTTCAGAGGCTGGAGAGTGAACCCGATGTGCTGGATGCACATCTTCTTCCAGAAGAAGCCCCTCGTATAGAGGACAATGGTACAGACTTCAAAGACGGAACATTAACCCCAGCCAAACCACAGGCAGTGAGAAGGAAGGCTTTGACAGGGTCCATGCCGATTAGGAAGAAAGATACTGTGGAGTCAGCCAGACCACAGCAGGGACTCCACATAGCTGAAAGAAATCGACCAAACCAACCTTACAGCAAAAGCAGGTTGCAGCAGACAACAGTGTCATCCAGATTAAAAATGAACCGACAGCCTATGAAAGACCATAGGGCTCCTTGGATACCTCCAAACCCCACATCCCCACCAGCCTCTCCTAAATGTGCTGCGTGGATGAAGGTGAAGTACAGCCCCAGGGATGCTGCAAAGGAGCAGTCCCTACAGCAAGAGGATACCCACAAGGAAAGTCAGCTGAGAGGTGATGCTGAGCAAGAAGCAGCCAGGCTTTCTTGGCCAGATGCTGAGTCTTCCAAAAGACTGAAGGAACTAGAAGAATTGGAAGCCAAAGAAATGGAAAGAAAGCAAAAGCAGAGGCTCAATTGGCTTGAGGCTGAGACTTCTAGAAGAACCAAAGAGTTGGATGAACTGAAAGCTGAAGAGATGGATAGACTTCAAAAATTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGAGGCTCAATTGGCTTG
59.83
CATGTAGAAGCTGGCTGGCT
60.11
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCTTGAGGCTGAGACTTC
59.68
CATGTAGAAGCTGGCTGGCT
60.11
162
PCR template sequence:
AAAAGCAGAGGCTCAATTGGCTTGAGGCTGAGACTTCTAGAAGAACCAAAGAGTTGGATGAACTGAAAGCTGAAGAGATGGATAGACTTCAAAAATTAAGGAAGATTTGCCTGATAACTAGGCAGCCGCTCATGTTCATCATCTGACCTGATGGGACCAAGCCAGCCAGCTTCTACATGTGTTCATCTAGCACCCAGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(2), mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-34c-5p(1), mmu-miR-31-5p(1), mmu-miR-205-5p(1), mmu-miR-7a-5p(1), mmu-miR-324-5p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-107-3p(1), mmu-miR-666-5p(1), mmu-miR-540-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TTCAAAAATTAAGGAAGATTTGCCTG
siRNA sets
AAATCTTCCTTAATTTTTG, ATCTTCCTTAATTTTTGAA, AATCTTCCTTAATTTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4933427D14RIK_2099_ORF_3
1.0025
0.156378674
0.921756098
735
ORF sequence:
ATGTGTCAGCCTGATGGGGAGCTTCAGAGGCTGGAGAGTGAACCCGATGTGCTGGATGCACATCTTCTTCCAGAAGAAGCCCCTCGTATAGAGGACAATGGTACAGACTTCAAAGACGGAACATTAACCCCAGCCAAACCACAGGCAGTGAGAAGGAAGGCTTTGACAGGGTCCATGCCGATTAGGAAGAAAGATACTGTGGAGTCAGCCAGACCACAGCAGGGACTCCACATAGCTGAAAGAAATCGACCAAACCAACCTTACAGCAAAAGCAGGTTGCAGCAGACAACAGTGTCATCCAGATTAAAAATGAACCGACAGCCTATGAAAGACCATAGGGCTCCTTGGATACCTCCAAACCCCACATCCCCACCAGCCTCTCCTAAATGTGCTGCGTGGATGAAGGTGAAGTACAGCCCCAGGGATGCTGCAAAGGAGCAGTCCCTACAGCAAGAGGATACCCACAAGGAAAGTCAGCTGAGAGGTGATGCTGAGCAAGAAGCAGCCAGGCTTTCTTGGCCAGATGCTGAGTCTTCCAAAAGACTGAAGGAACTAGAAGAATTGGAAGCCAAAGAAATGGAAAGAAAGCAAAAGCAGAGGCTCAATTGGCTTGAGGCTGAGACTTCTAGAAGAACCAAAGAGTTGGATGAACTGAAAGCTGAAGAGATGGATAGACTTCAAAAATTAAGGAAGATTTGCCTGATAACTAGGCAGCCGCTCATGTTCATCATCTGA
Peptide sequence:
MCQPDGELQRLESEPDVLDAHLLPEEAPRIEDNGTDFKDGTLTPAKPQAVRRKALTGSMPIRKKDTVESARPQQGLHIAERNRPNQPYSKSRLQQTTVSSRLKMNRQPMKDHRAPWIPPNPTSPPASPKCAAWMKVKYSPRDAAKEQSLQQEDTHKESQLRGDAEQEAARLSWPDAESSKRLKELEELEAKEMERKQKQRLNWLEAETSRRTKELDELKAEEMDRLQKLRKICLITRQPLMFII
IRESfinder result
IRESfinder score
0.497145807
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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