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mmu_circAdamts6_847
Basic information of circular RNA
PanCircBase ID:
mmu_circAdamts6_847
mm39_Chr. Position ID:
chr13|104503301|104550318|+
Gene name:
Adamts6
Transcript:
ENSMUST00000223562.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,11,12,13,14,15,16
Exon/intron offsets:
0,2860,8848,23284,31068,33149,46914
Genomic length:
47017
Exon/intron sizes in nt:
1,47,13,71,42,10,81,46,00,000
Flanking exon/introns:
chr13:104489371-104503301|chr13:104550318-104563442
Splice length:
847
Other database IDs:
circAtlas: mmu-Adamts6_0026
circAtlas: hsa-ADAMTS6_0029, CIRCpedia: HSA_CIRCpedia_52174
Human Ortholog IDs:
Mature spliced Sequence:
TTTTGGTATGAACCATGATGGAATTGGAAATTCTTGTGGGACGAAAGGTCATGAGGCAGCAAAACTTATGGCAGCTCATATTACTGCAAATACCAATCCCTTCTCCTGGTCTGCCTGCAGCAGAGACTACATCACCAGCTTTCTAGAATTTCTTAAACTCGGTGATTCAATAAGTGGTTCATGAATCGCCCAGAAGCCGTCCTGATTAAATAATAAAGAACCCATTTCCGTTAAAATGGACGTGTTTTGCCAGCTTCTGATGTTTTCCGAAGACGGCTTTGCAGTTCAGGCCGTGGTACTTGCCTTGATAATGAGCCTCCAAAGCGTGACTTTCTTTATCCAGCTGTGGCCCCAGGTCAGGTGTATGATGCTGATGAACAATGTCGTTTCCAGTATGGAGCAACATCCCGCCAATGCAAATATGGGGAAGTGTGTAGAGAGCTCTGGTGCCTCAGCAAAAGCAACCGCTGTGTCACCAACAGTATTCCAGCTGCTGAGGGGACACTGTGTCAGACTGGGAATATTGAGAAAGGGTGGTGTTATCAGGGAGATTGTGTTCCTTTTGGCACATGGCCCCAGAGTATTGATGGGGGCTGGGGTTCCTGGTCACTGTGGGGCGAGTGCAGTAGGACCTGCGGAGGAGGTGTCTCCTCGTCTCTAAGACACTGTGACAGTCCAGCACCTTCAGGAGGTGGGAAATATTGCCTTGGTGAAAGGAAACGCTACCGCTCTTGCAACACAGATCCATGCCCTTTGGGTTCCCGAGATTTTCGAGAAAAACAGTGTGCAGACTTTGACAGTATGCCTTTCCGGGGAAAGCATTATAACTGGAAACCCTATACTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTTTGGGTTCCCGAGATT
59.67
TGCCTCATGACCTTTCGTCC
60.04
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTTTGGGTTCCCGAGATT
59.67
CCTCATGACCTTTCGTCCCA
59.39
154
PCR template sequence:
TGCCCTTTGGGTTCCCGAGATTTTCGAGAAAAACAGTGTGCAGACTTTGACAGTATGCCTTTCCGGGGAAAGCATTATAACTGGAAACCCTATACTGGAGTTTTGGTATGAACCATGATGGAATTGGAAATTCTTGTGGGACGAAAGGTCATGAGGCAGCAAAACTTATGGCAGCTCATATTACTGCAAATACCAATCCC
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-92a-3p(1), mmu-miR-335-5p(1), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-miR-128-3p(1), mmu-miR-541-5p(1), mmu-miR-325-3p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTATACTGGAGTTTTGGTATGAAC
siRNA sets
GTTCATACCAAAACTCCAG,ACCAAAACTCCAGTATAGG,TTCATACCAAAACTCCAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.511564107
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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