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mmu_circB4galt6_356
Basic information of circular RNA
PanCircBase ID:
mmu_circB4galt6_356
mm39_Chr. Position ID:
chr18|20839461|20861135|-
Gene name:
B4galt6
Transcript:
ENSMUST00000070080.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,13624,21557
Genomic length:
21674
Exon/intron sizes in nt:
12,51,14,117
Flanking exon/introns:
chr18:20833912-20839461|chr18:20861135-20878409
Splice length:
356
Other database IDs:
CIRCpedia: MMU_CIRCpedia_13032, circAtlas: mmu-B4galt6_0002
circBase: hsa_circ_0047350, circAtlas: hsa-B4GALT6_0002, CIRCpedia: HSA_CIRCpedia_23628
Human Ortholog IDs:
Mature spliced Sequence:
CCAACACGTACCTCTTTATGGTACAAGCTAGAGGTATCATGCTGAGAGAGAATGTGAAAACAATTGGACACATGATCAGGCTGTATACCAATAAAAACACTACGCTCAACGGAACAGATTATCCTGAAGGCAATAATACAAGTGACTATCTTGTTCAAACAACAACGTATCTTCCGCAAAACTTCACGTATTTGCCACACCTCCCCTGTCCAGAGAAGCTGCCTTACATGCGGGGATTCCTCAGTGTCAATGTGAGTGAGATCAGTTTTGATGAAGTCCATCAGCTCTTCTCCAAGGACTCAGAGATTGGGCCAGGAGGCCACTGGAGGCCCAAAGACTGCAAGCCCAGATGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACTCAGAGATTGGGCCAGG
59.82
ACAGCCTGATCATGTGTCCA
59.01
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACTCAGAGATTGGGCCAG
59.82
ACAGCCTGATCATGTGTCCA
59.01
145
PCR template sequence:
TGAGATCAGTTTTGATGAAGTCCATCAGCTCTTCTCCAAGGACTCAGAGATTGGGCCAGGAGGCCACTGGAGGCCCAAAGACTGCAAGCCCAGATGGAAGCCAACACGTACCTCTTTATGGTACAAGCTAGAGGTATCATGCTGAGAGAGAATGTGAAAACAATTGGACACATGATCAGGCTGTATACCAATAAAAACAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-23a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCCAGATGGAAGCCAACACGTACCT
siRNA sets
TACGTGTTGGCTTCCATCT, TGTTGGCTTCCATCTGGGC, ACGTGTTGGCTTCCATCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCB4GALT6_356_ORF_1
0.5264
0.102167058
0.251223653
384
ORF sequence:
ATGGTACAAGCTAGAGGTATCATGCTGAGAGAGAATGTGAAAACAATTGGACACATGATCAGGCTGTATACCAATAAAAACACTACGCTCAACGGAACAGATTATCCTGAAGGCAATAATACAAGTGACTATCTTGTTCAAACAACAACGTATCTTCCGCAAAACTTCACGTATTTGCCACACCTCCCCTGTCCAGAGAAGCTGCCTTACATGCGGGGATTCCTCAGTGTCAATGTGAGTGAGATCAGTTTTGATGAAGTCCATCAGCTCTTCTCCAAGGACTCAGAGATTGGGCCAGGAGGCCACTGGAGGCCCAAAGACTGCAAGCCCAGATGGAAGCCAACACGTACCTCTTTATGGTACAAGCTAGAGGTATCATGCTGA
Peptide sequence:
MVQARGIMLRENVKTIGHMIRLYTNKNTTLNGTDYPEGNNTSDYLVQTTTYLPQNFTYLPHLPCPEKLPYMRGFLSVNVSEISFDEVHQLFSKDSEIGPGGHWRPKDCKPRWKPTRTSLWYKLEVSC
IRESfinder result
IRESfinder score
0.561490612
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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