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mmu_circEhmt1_525
Basic information of circular RNA
PanCircBase ID:
mmu_circEhmt1_525
mm39_Chr. Position ID:
chr2|24746617|24753920|-
Gene name:
Ehmt1
Transcript:
ENSMUST00000114432.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,7,6,5
Exon/intron offsets:
0,1567,6617,7166
Genomic length:
7303
Exon/intron sizes in nt:
12,17,81,89,137
Flanking exon/introns:
chr2:24738101-24746617|chr2:24753920-24767466
Splice length:
525
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14262, circAtlas: mmu-Ehmt1_0023
Human Ortholog IDs:
Mature spliced Sequence:
CAGCTGCAGTATCTCGGAAGAAAAAACGAAGAATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGATGTTTAAAAGCATAACCCATTCCACTGTGGGCGCCAAGGGCGAGAAAGCCTTAGATGATAGTGCCCTGCATGTAAATGGCGAGAGCTTGGAGATGGACTCAGAAGATGAAGACTCCGATGAGCTGGAGGATGACGAGGACCATGGAGCTGAGCAAGCGGCTGCATTTCCCACCGAGGATAGTAGGACTTCTAAAGAGAGCATGTCTGAGACTGACCGGGCTGCAAAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAGCCCCTGGATCAAAC
59.96
TCTCAATCACCGTCCTCTGT
58.08
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGATCAAACCTGCTCGGA
59.75
TCTCAATCACCGTCCTCTGT
58.08
161
PCR template sequence:
AAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGCAGCTGCAGTATCTCGGAAGAAAAAACGAAGAATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-128-3p(1), mmu-miR-207(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCAGCATGCTTGCAGCTGCAGTATC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEHMT1_525_ORF_1
1.1695
0.358075183
0.996698991
1017
ORF sequence:
ATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGATGTTTAAAAGCATAACCCATTCCACTGTGGGCGCCAAGGGCGAGAAAGCCTTAGATGATAGTGCCCTGCATGTAAATGGCGAGAGCTTGGAGATGGACTCAGAAGATGAAGACTCCGATGAGCTGGAGGATGACGAGGACCATGGAGCTGAGCAAGCGGCTGCATTTCCCACCGAGGATAGTAGGACTTCTAAAGAGAGCATGTCTGAGACTGACCGGGCTGCAAAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTTGCAGCTGCAGTATCTCGGAAGAAAAAACGAAGAATGGGAACCTATAGTTTAGTTCCCAAGAAAAAGACCAAAGTATTAAAACAGAGGACGGTGATTGAGATGTTTAAAAGCATAACCCATTCCACTGTGGGCGCCAAGGGCGAGAAAGCCTTAGATGATAGTGCCCTGCATGTAAATGGCGAGAGCTTGGAGATGGACTCAGAAGATGAAGACTCCGATGAGCTGGAGGATGACGAGGACCATGGAGCTGAGCAAGCGGCTGCATTTCCCACCGAGGATAGTAGGACTTCTAAAGAGAGCATGTCTGAGACTGACCGGGCTGCAAAGATGGATGGAGATTCAGAGGAGGAACAGGAGTCTCCCGACACAGGGGAGGATGAAGATGGTGGAGACGAGTCTGACCTGAGTTCTGAATCCAGTATCAAGAAGAAATTTCTCAAGAGGAGAGGGAAGACTGACAGCCCCTGGATCAAACCTGCTCGGAAAAGGAGGCGGAGAAGTAGAAAGAAGCCGAGCAGCATGCTT
Peptide sequence:
MGTYSLVPKKKTKVLKQRTVIEMFKSITHSTVGAKGEKALDDSALHVNGESLEMDSEDEDSDELEDDEDHGAEQAAAFPTEDSRTSKESMSETDRAAKMDGDSEEEQESPDTGEDEDGGDESDLSSESSIKKKFLKRRGKTDSPWIKPARKRRRRSRKKPSSMLAAAVSRKKKRRMGTYSLVPKKKTKVLKQRTVIEMFKSITHSTVGAKGEKALDDSALHVNGESLEMDSEDEDSDELEDDEDHGAEQAAAFPTEDSRTSKESMSETDRAAKMDGDSEEEQESPDTGEDEDGGDESDLSSESSIKKKFLKRRGKTDSPWIKPARKRRRRSRKKPSSML
IRESfinder result
IRESfinder score
0.294113364
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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