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mmu_circNfatc3_363
Basic information of circular RNA
PanCircBase ID:
mmu_circNfatc3_363
mm39_Chr. Position ID:
chr8|106810442|106818863|+
Gene name:
Nfatc3
Transcript:
ENSMUST00000212742.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,8221
Genomic length:
8421
Exon/intron sizes in nt:
163,200
Flanking exon/introns:
chr8:106806373-106810442|chr8:106818863-106822795
Splice length:
363
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224934, circAtlas: mmu-Nfatc3_0029
circAtlas: hsa-NFATC3_0052, CIRCpedia: HSA_CIRCpedia_167611
Human Ortholog IDs:
Mature spliced Sequence:
CACATCTTCATTACCTCCATTAGACTGGCCTTTACCAACTCACTTTGGACAATGTGAATTGAAAATAGAAGTGCAACCTAAAACTCACCATAGAGCCCATTATGAAACTGAAGGTAGCCGAGGGGCAGTGAAAGCCTCTACTGGTGGCCATCCTGTTGTGAAGCTCCTGGGCTATAGTGAAAAGCCAATAAATCTACAGATGTTTATTGGAACAGCCGATGATAGATATTTACGACCTCATGCATTTTACCAGGTGCATCGGATTACTGGAAAGACAGTTGCTACTGCAAGTCAAGAGATAATAATCGCCAGCACAAAAGTTCTGGAAATCCCACTTCTACCTGAAAATAATATGTCAGCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCAGCACAAAAGTTCTGG
60.32
TGGGCTCTATGGTGAGTTTTAGG
59.8
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCAGCACAAAAGTTCTGG
60.32
GGGCTCTATGGTGAGTTTTAGGT
59.8
155
PCR template sequence:
TTACTGGAAAGACAGTTGCTACTGCAAGTCAAGAGATAATAATCGCCAGCACAAAAGTTCTGGAAATCCCACTTCTACCTGAAAATAATATGTCAGCGAGCACATCTTCATTACCTCCATTAGACTGGCCTTTACCAACTCACTTTGGACAATGTGAATTGAAAATAGAAGTGCAACCTAAAACTCACCATAGAGCCCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-23a-3p(1), mmu-miR-433-3p(1), mmu-miR-501-3p(1), mmu-miR-324-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATATGTCAGCGAGCACATCTTCATTA
siRNA sets
TAATGAAGATGTGCTCGCT, AATGAAGATGTGCTCGCTG, ATGAAGATGTGCTCGCTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNFATC3_363_ORF_1
1.0329
-0.003787987
0.606789175
525
ORF sequence:
ATGTTTATTGGAACAGCCGATGATAGATATTTACGACCTCATGCATTTTACCAGGTGCATCGGATTACTGGAAAGACAGTTGCTACTGCAAGTCAAGAGATAATAATCGCCAGCACAAAAGTTCTGGAAATCCCACTTCTACCTGAAAATAATATGTCAGCGAGCACATCTTCATTACCTCCATTAGACTGGCCTTTACCAACTCACTTTGGACAATGTGAATTGAAAATAGAAGTGCAACCTAAAACTCACCATAGAGCCCATTATGAAACTGAAGGTAGCCGAGGGGCAGTGAAAGCCTCTACTGGTGGCCATCCTGTTGTGAAGCTCCTGGGCTATAGTGAAAAGCCAATAAATCTACAGATGTTTATTGGAACAGCCGATGATAGATATTTACGACCTCATGCATTTTACCAGGTGCATCGGATTACTGGAAAGACAGTTGCTACTGCAAGTCAAGAGATAATAATCGCCAGCACAAAAGTTCTGGAAATCCCACTTCTACCTGAAAATAATATGTCAGCG
Peptide sequence:
MFIGTADDRYLRPHAFYQVHRITGKTVATASQEIIIASTKVLEIPLLPENNMSASTSSLPPLDWPLPTHFGQCELKIEVQPKTHHRAHYETEGSRGAVKASTGGHPVVKLLGYSEKPINLQMFIGTADDRYLRPHAFYQVHRITGKTVATASQEIIIASTKVLEIPLLPENNMSA
IRESfinder result
IRESfinder score
0.577579245
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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