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mmu_circChuk_692
Basic information of circular RNA
PanCircBase ID:
mmu_circChuk_692
mm39_Chr. Position ID:
chr19|44085347|44092191|-
Gene name:
Chuk
Transcript:
ENSMUST00000026217.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,294,533,1676,3241,4828,6749
Genomic length:
6844
Exon/intron sizes in nt:
108,125,90,89,70,115,95
Flanking exon/introns:
chr19:44084798-44085347|chr19:44092191-44095726
Splice length:
692
Other database IDs:
circAtlas: mmu-Chuk_0007
Human Ortholog IDs:
Mature spliced Sequence:
GAACTTGATCTCAAAATAGCAATTAAGTCTTGTCGTTTAGAGCTAAGTTCCAAAAACAGAGAGCGATGGTGCCATGAAATCCAGATCATGAAAAAGTTGGACCATGCGAATGTTGTAAAGGCCTGTGATGTCCCTGAGGAATTGAACTTTTTAATTAACGATGTGCCTCTTCTGGCAATGGAGTACTGTTCTGGAGGGGACCTCCGGAAGCTACTCAACAAACCAGAAAATTGTTGTGGACTTAAAGAAAGCCAGATACTTTCTTTACTGAGTGACATAGGATCTGGGATCCGATATCTGCATGAAAACAAAATTATACATCGAGATCTAAAACCTGAAAATATAGTTCTTCAAGATGTTGGTGGGAAGACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTGGCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTGGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGATGACTGGAGAAGTTCGGT
59.51
GGATTTCATGGCACCATCGC
59.97
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGACTGGAGAAGTTCGGT
58.47
GGATTTCATGGCACCATCGC
59.97
140
PCR template sequence:
AGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGGAACTTGATCTCAAAATAGCAATTAAGTCTTGTCGTTTAGAGCTAAGTTCCAAAAACAGAGAGCGATGGTGCCATGAAATCCAGATCATGAAAAAGTTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-181a-5p(1), mmu-miR-200c-3p(1), mmu-miR-326-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGCCTTTGTAGGAACTTGATCTCA
siRNA sets
GATCAAGTTCCTACAAAGG, ATCAAGTTCCTACAAAGGC, TCAAGTTCCTACAAAGGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCHUK_692_ORF_1
0.9597
0.004763606
0.737247097
624
ORF sequence:
ATGAAAAAGTTGGACCATGCGAATGTTGTAAAGGCCTGTGATGTCCCTGAGGAATTGAACTTTTTAATTAACGATGTGCCTCTTCTGGCAATGGAGTACTGTTCTGGAGGGGACCTCCGGAAGCTACTCAACAAACCAGAAAATTGTTGTGGACTTAAAGAAAGCCAGATACTTTCTTTACTGAGTGACATAGGATCTGGGATCCGATATCTGCATGAAAACAAAATTATACATCGAGATCTAAAACCTGAAAATATAGTTCTTCAAGATGTTGGTGGGAAGACAATACATAAAATAATTGATTTGGGTTATGCCAAAGATGTTGATCAAGGAAGTCTCTGTACATCTTTTGTGGGAACATTGCAGTATTTGGCCCCAGAGCTCTTTGAAAATAAGCCGTACACAGCCACTGTGGATTATTGGAGCTTTGGGACCATGGTGTTTGAATGTATTGCTGGATATAGGCCTTTTTTGCATCATCTGCAGCCATTTACCTGGCATGAGAAGATTAAGAAGAAAGATCCAAAGTGTATATTTGCATGTGAAGAGATGACTGGAGAAGTTCGGTTTAGTAGCCATTTACCTCAGCCAAACAGCCTTTGTAGGAACTTGATCTCAAAATAG
Peptide sequence:
MKKLDHANVVKACDVPEELNFLINDVPLLAMEYCSGGDLRKLLNKPENCCGLKESQILSLLSDIGSGIRYLHENKIIHRDLKPENIVLQDVGGKTIHKIIDLGYAKDVDQGSLCTSFVGTLQYLAPELFENKPYTATVDYWSFGTMVFECIAGYRPFLHHLQPFTWHEKIKKKDPKCIFACEEMTGEVRFSSHLPQPNSLCRNLISK
IRESfinder result
IRESfinder score
0.670687143
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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