top of page
mmu_circParg_616
Basic information of circular RNA
PanCircBase ID:
mmu_circParg_616
mm39_Chr. Position ID:
chr14|31960487|31984788|+
Gene name:
Parg
Transcript:
ENSMUST00000163350.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,9,10,11,12,13
Exon/intron offsets:
0,3658,11486,16005,19547,24153
Genomic length:
24301
Exon/intron sizes in nt:
9,31,58,80,61,76,148
Flanking exon/introns:
chr14:31939691-31960487|chr14:31984788-31993586
Splice length:
616
Other database IDs:
circBase: mmu_circ_0005206, CIRCpedia: MMU_CIRCpedia_16457, circAtlas: mmu-Parg_0005
circAtlas: hsa-PARG_0002, CIRCpedia: HSA_CIRCpedia_161695
Human Ortholog IDs:
Mature spliced Sequence:
GTACTTGAAGAAGCAGAGGCCCAACATTTATATCAGTCCATTTTACCTGACATGGTGAAAATTGCACTCTGTCTGCCAAATATTTGCACCCAGCCAATACCACTCCTGAAACAGAAGATGAATCATTCTGTCACGATGTCACAGGAACAGATCGCCAGTCTTTTAGCTAATGCTTTCTTCTGCACATTTCCCCGACGGAATGCCAAGATGAAATCGGAGTATTCTAGTTACCCAGACATTAACTTCAATCGGTTGTTTGAAGGACGTTCATCAAGGAAACCAGAAAAACTGAAAACACTCTTCTGCTACTTTCGAAGAGTCACAGAGAAAAAACCTACAGGATTGGTGACATTTACAAGACAGAGTCTTGAAGATTTTCCAGAATGGGAAAGGTGTGAAAAGCCTCTGACACGCTTACACGTCACTTACGAGGGTACCATAGAAGGCAACGGCCGAGGCATGCTACAGGTGGATTTTGCAAATCGTTTTGTTGGAGGTGGTGTGACTGGTGCGGGACTTGTACAAGAAGAAATCAGATTTTTAATCAATCCTGAATTGATTGTTTCACGGCTGTTCACTGAGGTGCTGGATCACAATGAGTGTCTTATTATCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCACGGCTGTTCACTGAGG
60.25
GCTGGGTGCAAATATTTGGCA
60.07
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTTCACTGAGGTGCTGGA
59.61
GCTGGGTGCAAATATTTGGCA
60.07
140
PCR template sequence:
CTTGTACAAGAAGAAATCAGATTTTTAATCAATCCTGAATTGATTGTTTCACGGCTGTTCACTGAGGTGCTGGATCACAATGAGTGTCTTATTATCACAGGTACTTGAAGAAGCAGAGGCCCAACATTTATATCAGTCCATTTTACCTGACATGGTGAAAATTGCACTCTGTCTGCCAAATATTTGCACCCAGCCAATAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-19b-3p(1), mmu-miR-130a-3p(1), mmu-miR-19a-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-301a-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-3065-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTATTATCACAGGTACTTGAAGAAG
siRNA sets
CTTCTTCAAGTACCTGTGA,TTCTTCAAGTACCTGTGAT,AAGTACCTGTGATAATAAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPARG_616_ORF_1
0.7273
0.078731582
0.729497226
636
ORF sequence:
ATGAGTGTCTTATTATCACAGGTACTTGAAGAAGCAGAGGCCCAACATTTATATCAGTCCATTTTACCTGACATGGTGAAAATTGCACTCTGTCTGCCAAATATTTGCACCCAGCCAATACCACTCCTGAAACAGAAGATGAATCATTCTGTCACGATGTCACAGGAACAGATCGCCAGTCTTTTAGCTAATGCTTTCTTCTGCACATTTCCCCGACGGAATGCCAAGATGAAATCGGAGTATTCTAGTTACCCAGACATTAACTTCAATCGGTTGTTTGAAGGACGTTCATCAAGGAAACCAGAAAAACTGAAAACACTCTTCTGCTACTTTCGAAGAGTCACAGAGAAAAAACCTACAGGATTGGTGACATTTACAAGACAGAGTCTTGAAGATTTTCCAGAATGGGAAAGGTGTGAAAAGCCTCTGACACGCTTACACGTCACTTACGAGGGTACCATAGAAGGCAACGGCCGAGGCATGCTACAGGTGGATTTTGCAAATCGTTTTGTTGGAGGTGGTGTGACTGGTGCGGGACTTGTACAAGAAGAAATCAGATTTTTAATCAATCCTGAATTGATTGTTTCACGGCTGTTCACTGAGGTGCTGGATCACAATGAGTGTCTTATTATCACA
Peptide sequence:
MSVLLSQVLEEAEAQHLYQSILPDMVKIALCLPNICTQPIPLLKQKMNHSVTMSQEQIASLLANAFFCTFPRRNAKMKSEYSSYPDINFNRLFEGRSSRKPEKLKTLFCYFRRVTEKKPTGLVTFTRQSLEDFPEWERCEKPLTRLHVTYEGTIEGNGRGMLQVDFANRFVGGGVTGAGLVQEEIRFLINPELIVSRLFTEVLDHNECLIIT
IRESfinder result
IRESfinder score
0.655150883
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page