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mmu_circEhmt1_1682
Basic information of circular RNA
PanCircBase ID:
mmu_circEhmt1_1682
mm39_Chr. Position ID:
chr2|24714956|24753941|-
Gene name:
Ehmt1
Transcript:
ENSMUST00000147147.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7,6,5
Exon/intron offsets:
0,11451,12631,13756,14585,15691,22999,27720,31661,33228,38278,38827
Genomic length:
38985
Exon/intron sizes in nt:
123,107,83,168,227,144,146,138,121,78,189,158
Flanking exon/introns:
chr2:24705844-24714956|chr2:24753941-24767466
Splice length:
1682
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14238, circAtlas: mmu-Ehmt1_0033
Human Ortholog IDs:
Mature spliced Sequence:
CTTGCTTGCCTTTTGTTTTAGCAGCTGCAGTATCTCGGAAGAAAAAACGAAGAATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGATGTTTAAAAGCATAACCCATTCCACTGTGGGCGCCAAGGGCGAGAAAGCCTTAGATGATAGTGCCCTGCATGTAAATGGCGAGAGCTTGGAGATGGACTCAGAAGATGAAGACTCCGATGAGCTGGAGGATGACGAGGACCATGGAGCTGAGCAAGCGGCTGCATTTCCCACCGAGGATAGTAGGACTTCTAAAGAGAGCATGTCTGAGACTGACCGGGCTGCAAAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGGTTCCGAGGCTTGTAAGTCATCTCCAGGAAGCATGGAGCAGGCAGCTCTGGGAGACAGCGCTGGCTATATGGAAGTTTCCCTGGATTCCCTGGATCTCCGTGTCAGAGGAATTCTGTCTTCCCAGACAGAAAATGAAGGGCTGGCCAGTGGTCCGGATGTGCTGGGGACGGATGGCCTCCAGGAAGTGCCTCTCTGCAGCTGCCGAATGGAAACCCCCAAGAGCCGCGAGATCAGCACCCTGGCCAACAACCAGTGCATGGCCACTGAGAGCGTGGATCACGAATTGGGCCGGTGTACAAACAGCGTGGTCAAGTATGAGCTGATGCGCCCATCCAACAAAGCACCGCTCTTGGTGTTATGTGAAGACCATCGGGGTCGCATGGTGAAGCACCAGTGCTGTCCTGGCTGCGGCTACTTCTGCACGGCGGGTAACTTCATGGAATGCCAGCCTGAGAGCAGCATCTCTCATCGTTTCCATAAGGACTGTGCCTCTCGAGTCAACAATGCCAGCTACTGTCCCCATTGTGGGGAAGAAGCTTCCAAGGCCAAAGAGGTGACCATAGCAAAAGCAGACACAACTTCCACAGTGACCCTAGCCCCTGGACAGGAGAAGAGCCTGGCTGCTGAAGGCAGGGCTGACACGACCACGGGCAGCATTGCTGGAGCCCCAGAGGATGAAAGATCGCAGAGCACAGCCCCCCAGGCACCAGAGTGCTTCGACCCTGCCGGACCGGCTGGGCTCGTGAGGCCGACATCTGGCCTTTCCCAGGGCCCAGGAAAGGAAACCTTGGAAAGTGCTCTAATCGCTCTAGACTCTGAAAAACCCAAGAAACTTCGCTTCCACCCAAAGCAGCTGTACTTCTCTGCCAGGCAGGGTGAGCTGCAGAAGGTGCTTCTCATGCTGGTTGATGGAATTGATCCCAACTTCAAAATGGAGCACCAAAGTAAGCGTTCCCCATTACATGCTGCTGCGGAGGCTGGCCACGTGGACATCTGCCACATGCTGGTTCAGGCGGGTGCCAATATTGACACTTGCTCAGAGGACCAGCGGACCCCACTGATGGAGGCTGCAGAGAACAACCACTTGGATGCAGTGAAGTACCTCATCAAGGCTGGAGCACAGGTGGATCCGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGAGGACCAGCGGACC
61.72
TTCCGAGATACTGCAGCTGC
60.18
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGAGGACCAGCGGAC
59.11
TTCCGAGATACTGCAGCTGC
60.18
140
PCR template sequence:
CTCAGAGGACCAGCGGACCCCACTGATGGAGGCTGCAGAGAACAACCACTTGGATGCAGTGAAGTACCTCATCAAGGCTGGAGCACAGGTGGATCCGAAGCTTGCTTGCCTTTTGTTTTAGCAGCTGCAGTATCTCGGAAGAAAAAACGAAGAATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-298-5p(1), mmu-miR-217-5p(1), mmu-miR-7a-5p(1), mmu-miR-128-3p(1), mmu-miR-136-5p(1), mmu-miR-127-3p(1), mmu-miR-107-3p(1), mmu-miR-539-5p(1), mmu-miR-484(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTGGATCCGAAGCTTGCTTGCCTTT
siRNA sets
AAGCAAGCTTCGGATCCAC, CAAGCAAGCTTCGGATCCA, GCAAGCAAGCTTCGGATCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEHMT1_1682_ORF_1
1.0318
0.345026783
0.999950558
1650
ORF sequence:
ATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGATGTTTAAAAGCATAACCCATTCCACTGTGGGCGCCAAGGGCGAGAAAGCCTTAGATGATAGTGCCCTGCATGTAAATGGCGAGAGCTTGGAGATGGACTCAGAAGATGAAGACTCCGATGAGCTGGAGGATGACGAGGACCATGGAGCTGAGCAAGCGGCTGCATTTCCCACCGAGGATAGTAGGACTTCTAAAGAGAGCATGTCTGAGACTGACCGGGCTGCAAAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGGTTCCGAGGCTTGTAAGTCATCTCCAGGAAGCATGGAGCAGGCAGCTCTGGGAGACAGCGCTGGCTATATGGAAGTTTCCCTGGATTCCCTGGATCTCCGTGTCAGAGGAATTCTGTCTTCCCAGACAGAAAATGAAGGGCTGGCCAGTGGTCCGGATGTGCTGGGGACGGATGGCCTCCAGGAAGTGCCTCTCTGCAGCTGCCGAATGGAAACCCCCAAGAGCCGCGAGATCAGCACCCTGGCCAACAACCAGTGCATGGCCACTGAGAGCGTGGATCACGAATTGGGCCGGTGTACAAACAGCGTGGTCAAGTATGAGCTGATGCGCCCATCCAACAAAGCACCGCTCTTGGTGTTATGTGAAGACCATCGGGGTCGCATGGTGAAGCACCAGTGCTGTCCTGGCTGCGGCTACTTCTGCACGGCGGGTAACTTCATGGAATGCCAGCCTGAGAGCAGCATCTCTCATCGTTTCCATAAGGACTGTGCCTCTCGAGTCAACAATGCCAGCTACTGTCCCCATTGTGGGGAAGAAGCTTCCAAGGCCAAAGAGGTGACCATAGCAAAAGCAGACACAACTTCCACAGTGACCCTAGCCCCTGGACAGGAGAAGAGCCTGGCTGCTGAAGGCAGGGCTGACACGACCACGGGCAGCATTGCTGGAGCCCCAGAGGATGAAAGATCGCAGAGCACAGCCCCCCAGGCACCAGAGTGCTTCGACCCTGCCGGACCGGCTGGGCTCGTGAGGCCGACATCTGGCCTTTCCCAGGGCCCAGGAAAGGAAACCTTGGAAAGTGCTCTAATCGCTCTAGACTCTGAAAAACCCAAGAAACTTCGCTTCCACCCAAAGCAGCTGTACTTCTCTGCCAGGCAGGGTGAGCTGCAGAAGGTGCTTCTCATGCTGGTTGATGGAATTGATCCCAACTTCAAAATGGAGCACCAAAGTAAGCGTTCCCCATTACATGCTGCTGCGGAGGCTGGCCACGTGGACATCTGCCACATGCTGGTTCAGGCGGGTGCCAATATTGACACTTGCTCAGAGGACCAGCGGACCCCACTGATGGAGGCTGCAGAGAACAACCACTTGGATGCAGTGAAGTACCTCATCAAGGCTGGAGCACAGGTGGATCCGAAGCTTGCTTGCCTTTTGTTTTAG
Peptide sequence:
MGTYSLVPKKKTKVLKQRTVIEMFKSITHSTVGAKGEKALDDSALHVNGESLEMDSEDEDSDELEDDEDHGAEQAAAFPTEDSRTSKESMSETDRAAKMDGDSEEEQESPDTGEDEDGGDESDLSSESSIKKKFLKRRGKTDSPWIKPARKRRRRSRKKPSSMLGSEACKSSPGSMEQAALGDSAGYMEVSLDSLDLRVRGILSSQTENEGLASGPDVLGTDGLQEVPLCSCRMETPKSREISTLANNQCMATESVDHELGRCTNSVVKYELMRPSNKAPLLVLCEDHRGRMVKHQCCPGCGYFCTAGNFMECQPESSISHRFHKDCASRVNNASYCPHCGEEASKAKEVTIAKADTTSTVTLAPGQEKSLAAEGRADTTTGSIAGAPEDERSQSTAPQAPECFDPAGPAGLVRPTSGLSQGPGKETLESALIALDSEKPKKLRFHPKQLYFSARQGELQKVLLMLVDGIDPNFKMEHQSKRSPLHAAAEAGHVDICHMLVQAGANIDTCSEDQRTPLMEAAENNHLDAVKYLIKAGAQVDPKLACLLF
IRESfinder result
IRESfinder score
0.332954437
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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