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mmu_circEhmt1_1854
Basic information of circular RNA
PanCircBase ID:
mmu_circEhmt1_1854
mm39_Chr. Position ID:
chr2|24714956|24767638|-
Gene name:
Ehmt1
Transcript:
ENSMUST00000147147.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,11451,12631,13756,14585,15691,22999,27720,31661,33228,38278,38827,52510
Genomic length:
52682
Exon/intron sizes in nt:
12,31,07,83,16,82,27,10,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:24705844-24714956|chr2:24767638-24774157
Splice length:
1854
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14239, circAtlas: mmu-Ehmt1_0053
Human Ortholog IDs:
Mature spliced Sequence:
CATGCAGCCAGCAAAGACCATAGAGAAGTTCAAGACCATAAGGAACCAAAAGAGGATATCAACAGAAACATTTCTGAATGTGGACGACAGCAGCTTTTACCAACCTTCCCAGCCCTCCACCAGTCGCTACCTCAGAATCAGTGCTACATGGCCACCACAAAGTCCCAGACAGCTTGCTTGCCTTTTGTTTTAGCAGCTGCAGTATCTCGGAAGAAAAAACGAAGAATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGATGTTTAAAAGCATAACCCATTCCACTGTGGGCGCCAAGGGCGAGAAAGCCTTAGATGATAGTGCCCTGCATGTAAATGGCGAGAGCTTGGAGATGGACTCAGAAGATGAAGACTCCGATGAGCTGGAGGATGACGAGGACCATGGAGCTGAGCAAGCGGCTGCATTTCCCACCGAGGATAGTAGGACTTCTAAAGAGAGCATGTCTGAGACTGACCGGGCTGCAAAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGGTTCCGAGGCTTGTAAGTCATCTCCAGGAAGCATGGAGCAGGCAGCTCTGGGAGACAGCGCTGGCTATATGGAAGTTTCCCTGGATTCCCTGGATCTCCGTGTCAGAGGAATTCTGTCTTCCCAGACAGAAAATGAAGGGCTGGCCAGTGGTCCGGATGTGCTGGGGACGGATGGCCTCCAGGAAGTGCCTCTCTGCAGCTGCCGAATGGAAACCCCCAAGAGCCGCGAGATCAGCACCCTGGCCAACAACCAGTGCATGGCCACTGAGAGCGTGGATCACGAATTGGGCCGGTGTACAAACAGCGTGGTCAAGTATGAGCTGATGCGCCCATCCAACAAAGCACCGCTCTTGGTGTTATGTGAAGACCATCGGGGTCGCATGGTGAAGCACCAGTGCTGTCCTGGCTGCGGCTACTTCTGCACGGCGGGTAACTTCATGGAATGCCAGCCTGAGAGCAGCATCTCTCATCGTTTCCATAAGGACTGTGCCTCTCGAGTCAACAATGCCAGCTACTGTCCCCATTGTGGGGAAGAAGCTTCCAAGGCCAAAGAGGTGACCATAGCAAAAGCAGACACAACTTCCACAGTGACCCTAGCCCCTGGACAGGAGAAGAGCCTGGCTGCTGAAGGCAGGGCTGACACGACCACGGGCAGCATTGCTGGAGCCCCAGAGGATGAAAGATCGCAGAGCACAGCCCCCCAGGCACCAGAGTGCTTCGACCCTGCCGGACCGGCTGGGCTCGTGAGGCCGACATCTGGCCTTTCCCAGGGCCCAGGAAAGGAAACCTTGGAAAGTGCTCTAATCGCTCTAGACTCTGAAAAACCCAAGAAACTTCGCTTCCACCCAAAGCAGCTGTACTTCTCTGCCAGGCAGGGTGAGCTGCAGAAGGTGCTTCTCATGCTGGTTGATGGAATTGATCCCAACTTCAAAATGGAGCACCAAAGTAAGCGTTCCCCATTACATGCTGCTGCGGAGGCTGGCCACGTGGACATCTGCCACATGCTGGTTCAGGCGGGTGCCAATATTGACACTTGCTCAGAGGACCAGCGGACCCCACTGATGGAGGCTGCAGAGAACAACCACTTGGATGCAGTGAAGTACCTCATCAAGGCTGGAGCACAGGTGGATCCGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCTGCAGAGAACAACCA
60.25
AAGCTGCTGTCGTCCACATT
60.25
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCTGCAGAGAACAACCA
60.25
AAAGCTGCTGTCGTCCACAT
60.25
169
PCR template sequence:
CTCAGAGGACCAGCGGACCCCACTGATGGAGGCTGCAGAGAACAACCACTTGGATGCAGTGAAGTACCTCATCAAGGCTGGAGCACAGGTGGATCCGAAGCATGCAGCCAGCAAAGACCATAGAGAAGTTCAAGACCATAAGGAACCAAAAGAGGATATCAACAGAAACATTTCTGAATGTGGACGACAGCAGCTTTTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
24
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-let-7a-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(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-98-5p(1), mmu-miR-539-5p(1), mmu-miR-484(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTGGATCCGAAGCATGCAGCCAGCA
siRNA sets
TGCATGCTTCGGATCCACC, CTGCATGCTTCGGATCCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEHMT1_1854_ORF_1
1.0912
0.341110419
1
3561
ORF sequence:
ATGGCCACCACAAAGTCCCAGACAGCTTGCTTGCCTTTTGTTTTAGCAGCTGCAGTATCTCGGAAGAAAAAACGAAGAATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGATGTTTAAAAGCATAACCCATTCCACTGTGGGCGCCAAGGGCGAGAAAGCCTTAGATGATAGTGCCCTGCATGTAAATGGCGAGAGCTTGGAGATGGACTCAGAAGATGAAGACTCCGATGAGCTGGAGGATGACGAGGACCATGGAGCTGAGCAAGCGGCTGCATTTCCCACCGAGGATAGTAGGACTTCTAAAGAGAGCATGTCTGAGACTGACCGGGCTGCAAAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGGTTCCGAGGCTTGTAAGTCATCTCCAGGAAGCATGGAGCAGGCAGCTCTGGGAGACAGCGCTGGCTATATGGAAGTTTCCCTGGATTCCCTGGATCTCCGTGTCAGAGGAATTCTGTCTTCCCAGACAGAAAATGAAGGGCTGGCCAGTGGTCCGGATGTGCTGGGGACGGATGGCCTCCAGGAAGTGCCTCTCTGCAGCTGCCGAATGGAAACCCCCAAGAGCCGCGAGATCAGCACCCTGGCCAACAACCAGTGCATGGCCACTGAGAGCGTGGATCACGAATTGGGCCGGTGTACAAACAGCGTGGTCAAGTATGAGCTGATGCGCCCATCCAACAAAGCACCGCTCTTGGTGTTATGTGAAGACCATCGGGGTCGCATGGTGAAGCACCAGTGCTGTCCTGGCTGCGGCTACTTCTGCACGGCGGGTAACTTCATGGAATGCCAGCCTGAGAGCAGCATCTCTCATCGTTTCCATAAGGACTGTGCCTCTCGAGTCAACAATGCCAGCTACTGTCCCCATTGTGGGGAAGAAGCTTCCAAGGCCAAAGAGGTGACCATAGCAAAAGCAGACACAACTTCCACAGTGACCCTAGCCCCTGGACAGGAGAAGAGCCTGGCTGCTGAAGGCAGGGCTGACACGACCACGGGCAGCATTGCTGGAGCCCCAGAGGATGAAAGATCGCAGAGCACAGCCCCCCAGGCACCAGAGTGCTTCGACCCTGCCGGACCGGCTGGGCTCGTGAGGCCGACATCTGGCCTTTCCCAGGGCCCAGGAAAGGAAACCTTGGAAAGTGCTCTAATCGCTCTAGACTCTGAAAAACCCAAGAAACTTCGCTTCCACCCAAAGCAGCTGTACTTCTCTGCCAGGCAGGGTGAGCTGCAGAAGGTGCTTCTCATGCTGGTTGATGGAATTGATCCCAACTTCAAAATGGAGCACCAAAGTAAGCGTTCCCCATTACATGCTGCTGCGGAGGCTGGCCACGTGGACATCTGCCACATGCTGGTTCAGGCGGGTGCCAATATTGACACTTGCTCAGAGGACCAGCGGACCCCACTGATGGAGGCTGCAGAGAACAACCACTTGGATGCAGTGAAGTACCTCATCAAGGCTGGAGCACAGGTGGATCCGAAGCATGCAGCCAGCAAAGACCATAGAGAAGTTCAAGACCATAAGGAACCAAAAGAGGATATCAACAGAAACATTTCTGAATGTGGACGACAGCAGCTTTTACCAACCTTCCCAGCCCTCCACCAGTCGCTACCTCAGAATCAGTGCTACATGGCCACCACAAAGTCCCAGACAGCTTGCTTGCCTTTTGTTTTAGCAGCTGCAGTATCTCGGAAGAAAAAACGAAGAATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGATGTTTAAAAGCATAACCCATTCCACTGTGGGCGCCAAGGGCGAGAAAGCCTTAGATGATAGTGCCCTGCATGTAAATGGCGAGAGCTTGGAGATGGACTCAGAAGATGAAGACTCCGATGAGCTGGAGGATGACGAGGACCATGGAGCTGAGCAAGCGGCTGCATTTCCCACCGAGGATAGTAGGACTTCTAAAGAGAGCATGTCTGAGACTGACCGGGCTGCAAAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGGTTCCGAGGCTTGTAAGTCATCTCCAGGAAGCATGGAGCAGGCAGCTCTGGGAGACAGCGCTGGCTATATGGAAGTTTCCCTGGATTCCCTGGATCTCCGTGTCAGAGGAATTCTGTCTTCCCAGACAGAAAATGAAGGGCTGGCCAGTGGTCCGGATGTGCTGGGGACGGATGGCCTCCAGGAAGTGCCTCTCTGCAGCTGCCGAATGGAAACCCCCAAGAGCCGCGAGATCAGCACCCTGGCCAACAACCAGTGCATGGCCACTGAGAGCGTGGATCACGAATTGGGCCGGTGTACAAACAGCGTGGTCAAGTATGAGCTGATGCGCCCATCCAACAAAGCACCGCTCTTGGTGTTATGTGAAGACCATCGGGGTCGCATGGTGAAGCACCAGTGCTGTCCTGGCTGCGGCTACTTCTGCACGGCGGGTAACTTCATGGAATGCCAGCCTGAGAGCAGCATCTCTCATCGTTTCCATAAGGACTGTGCCTCTCGAGTCAACAATGCCAGCTACTGTCCCCATTGTGGGGAAGAAGCTTCCAAGGCCAAAGAGGTGACCATAGCAAAAGCAGACACAACTTCCACAGTGACCCTAGCCCCTGGACAGGAGAAGAGCCTGGCTGCTGAAGGCAGGGCTGACACGACCACGGGCAGCATTGCTGGAGCCCCAGAGGATGAAAGATCGCAGAGCACAGCCCCCCAGGCACCAGAGTGCTTCGACCCTGCCGGACCGGCTGGGCTCGTGAGGCCGACATCTGGCCTTTCCCAGGGCCCAGGAAAGGAAACCTTGGAAAGTGCTCTAATCGCTCTAGACTCTGAAAAACCCAAGAAACTTCGCTTCCACCCAAAGCAGCTGTACTTCTCTGCCAGGCAGGGTGAGCTGCAGAAGGTGCTTCTCATGCTGGTTGATGGAATTGATCCCAACTTCAAAATGGAGCACCAAAGTAAGCGTTCCCCATTACATGCTGCTGCGGAGGCTGGCCACGTGGACATCTGCCACATGCTGGTTCAGGCGGGTGCCAATATTGACACTTGCTCAGAGGACCAGCGGACCCCACTGATGGAGGCTGCAGAGAACAACCACTTGGATGCAGTGAAGTACCTCATCAAGGCTGGAGCACAGGTGGATCCGAAG
Peptide sequence:
MATTKSQTACLPFVLAAAVSRKKKRRMGTYSLVPKKKTKVLKQRTVIEMFKSITHSTVGAKGEKALDDSALHVNGESLEMDSEDEDSDELEDDEDHGAEQAAAFPTEDSRTSKESMSETDRAAKMDGDSEEEQESPDTGEDEDGGDESDLSSESSIKKKFLKRRGKTDSPWIKPARKRRRRSRKKPSSMLGSEACKSSPGSMEQAALGDSAGYMEVSLDSLDLRVRGILSSQTENEGLASGPDVLGTDGLQEVPLCSCRMETPKSREISTLANNQCMATESVDHELGRCTNSVVKYELMRPSNKAPLLVLCEDHRGRMVKHQCCPGCGYFCTAGNFMECQPESSISHRFHKDCASRVNNASYCPHCGEEASKAKEVTIAKADTTSTVTLAPGQEKSLAAEGRADTTTGSIAGAPEDERSQSTAPQAPECFDPAGPAGLVRPTSGLSQGPGKETLESALIALDSEKPKKLRFHPKQLYFSARQGELQKVLLMLVDGIDPNFKMEHQSKRSPLHAAAEAGHVDICHMLVQAGANIDTCSEDQRTPLMEAAENNHLDAVKYLIKAGAQVDPKHAASKDHREVQDHKEPKEDINRNISECGRQQLLPTFPALHQSLPQNQCYMATTKSQTACLPFVLAAAVSRKKKRRMGTYSLVPKKKTKVLKQRTVIEMFKSITHSTVGAKGEKALDDSALHVNGESLEMDSEDEDSDELEDDEDHGAEQAAAFPTEDSRTSKESMSETDRAAKMDGDSEEEQESPDTGEDEDGGDESDLSSESSIKKKFLKRRGKTDSPWIKPARKRRRRSRKKPSSMLGSEACKSSPGSMEQAALGDSAGYMEVSLDSLDLRVRGILSSQTENEGLASGPDVLGTDGLQEVPLCSCRMETPKSREISTLANNQCMATESVDHELGRCTNSVVKYELMRPSNKAPLLVLCEDHRGRMVKHQCCPGCGYFCTAGNFMECQPESSISHRFHKDCASRVNNASYCPHCGEEASKAKEVTIAKADTTSTVTLAPGQEKSLAAEGRADTTTGSIAGAPEDERSQSTAPQAPECFDPAGPAGLVRPTSGLSQGPGKETLESALIALDSEKPKKLRFHPKQLYFSARQGELQKVLLMLVDGIDPNFKMEHQSKRSPLHAAAEAGHVDICHMLVQAGANIDTCSEDQRTPLMEAAENNHLDAVKYLIKAGAQVDPK
IRESfinder result
IRESfinder score
0.351138794
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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