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mmu_circAdamts6_318_2
Basic information of circular RNA
PanCircBase ID:
mmu_circAdamts6_318_2
mm39_Chr. Position ID:
chr13|104550215|104566378|+
Gene name:
Adamts6
Transcript:
ENSMUST00000223562.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
16,17,18
Exon/intron offsets:
0,13227,16082
Genomic length:
16163
Exon/intron sizes in nt:
103,134,81
Flanking exon/introns:
chr13:104536514-104550215|chr13:104566378-104580560
Splice length:
318
Other database IDs:
circAtlas: mmu-Adamts6_0019
circAtlas: hsa-ADAMTS6_0018, CIRCpedia: HSA_CIRCpedia_52169
Human Ortholog IDs:
Mature spliced Sequence:
CCATGCCCTTTGGGTTCCCGAGATTTTCGAGAAAAACAGTGTGCAGACTTTGACAGTATGCCTTTCCGGGGAAAGCATTATAACTGGAAACCCTATACTGGAGGTGGGGTAAAACCTTGTGCATTAAATTGCCTGGCTGAAGGCTATAATTTCTACACAGAGCGAGCTCCTGCTGTGATAGATGGGACACAGTGCAATGCAGACTCACTGGATATCTGTATCAATGGAGAATGCAAGGTTATATGGAAGTGGTTCAGATACCAAGAGGCTCTGTTCATATTGAAGTAAGAGAAGTTTCCATGTCAAAAAATTACATTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTCAGATACCAAGAGGCTC
59.5
TTCCCCGGAAAGGCATACTG
59.75
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTCAGATACCAAGAGGCT
58.45
TTCCCCGGAAAGGCATACTG
59.75
142
PCR template sequence:
TATCAATGGAGAATGCAAGGTTATATGGAAGTGGTTCAGATACCAAGAGGCTCTGTTCATATTGAAGTAAGAGAAGTTTCCATGTCAAAAAATTACATTGCCATGCCCTTTGGGTTCCCGAGATTTTCGAGAAAAACAGTGTGCAGACTTTGACAGTATGCCTTTCCGGGGAAAGCATTATAACTGGAAACCCTATACTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-136-5p(1), mmu-miR-363-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAAATTACATTGCCATGCCCTTTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAMTS6_318_2_ORF_3
0.6656
-0.209726687
0.020629355
141
ORF sequence:
ATGCAAGGTTATATGGAAGTGGTTCAGATACCAAGAGGCTCTGTTCATATTGAAGTAAGAGAAGTTTCCATGTCAAAAAATTACATTGCCATGCCCTTTGGGTTCCCGAGATTTTCGAGAAAAACAGTGTGCAGACTTTGA
Peptide sequence:
MQGYMEVVQIPRGSVHIEVREVSMSKNYIAMPFGFPRFSRKTVCRL
IRESfinder result
IRESfinder score
0.594372021
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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