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mmu_circDzank1_491
Basic information of circular RNA
PanCircBase ID:
mmu_circDzank1_491
mm39_Chr. Position ID:
chr2|144352087|144364486|-
Gene name:
Dzank1
Transcript:
ENSMUST00000163701.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,1323,3228,12245
Genomic length:
12399
Exon/intron sizes in nt:
12,59,71,15,154
Flanking exon/introns:
chr2:144348164-144352087|chr2:144364486-144367499
Splice length:
491
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACACCCCAGATGTCAACATATATTACACCCTGGATGGCAGCAAACCTGACTTCCTAAAGAAAGTTGGTTCTGGTGAAAATAATACATTTAAATATGTAAAACCTATTACTCTGCCTGATGGAAAAATTCAAGTTAAAGCTGTTGCTGTCTCTAAAGACTGCAGACAGAGTGGAATTGTGACAAAGGTGTTTCAGGTGGACTATGAACCACCGAAGATGGTCTCTTCTGAAGACAATGTTGAAGATGCTCTCAAGGGGTTCTCAAAGCAGGAATTAAAAAATGGGTTTGTCGGACCAAAACTAAGGAAGAAGTATAAGAATGCTGAAAATAAATCAACTTGGAACGTTAACCTTAGACGGCTTGCAGACCTCAAGGTAGGCGAAAGAGCAGACCCTAAAACTCTGAAAGATCTTCGCTTCGCAGAGAGTCCACTGGAAATCCCAGCCTACCATGAGGGAGCGAGTGCTCGACTGCCTACTCACCAGGCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGATCTTCGCTTCGCAGAGAG
59.93
AGGAAGTCAGGTTTGCTGCC
60.54
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATCTTCGCTTCGCAGAGA
58.9
AGGAAGTCAGGTTTGCTGCC
60.54
140
PCR template sequence:
CCCTAAAACTCTGAAAGATCTTCGCTTCGCAGAGAGTCCACTGGAAATCCCAGCCTACCATGAGGGAGCGAGTGCTCGACTGCCTACTCACCAGGCCCAGACACCCCAGATGTCAACATATATTACACCCTGGATGGCAGCAAACCTGACTTCCTAAAGAAAGTTGGTTCTGGTGAAAATAATACATTTAAATATGTAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
TCACCAGGCCCAGACACCCCAGATGT
siRNA sets
CATCTGGGGTGTCTGGGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDZANK1_491_ORF_1
0.9828
0.135030888
0.381475141
333
ORF sequence:
ATGGTCTCTTCTGAAGACAATGTTGAAGATGCTCTCAAGGGGTTCTCAAAGCAGGAATTAAAAAATGGGTTTGTCGGACCAAAACTAAGGAAGAAGTATAAGAATGCTGAAAATAAATCAACTTGGAACGTTAACCTTAGACGGCTTGCAGACCTCAAGGTAGGCGAAAGAGCAGACCCTAAAACTCTGAAAGATCTTCGCTTCGCAGAGAGTCCACTGGAAATCCCAGCCTACCATGAGGGAGCGAGTGCTCGACTGCCTACTCACCAGGCCCAGACACCCCAGATGTCAACATATATTACACCCTGGATGGCAGCAAACCTGACTTCCTAA
Peptide sequence:
MVSSEDNVEDALKGFSKQELKNGFVGPKLRKKYKNAENKSTWNVNLRRLADLKVGERADPKTLKDLRFAESPLEIPAYHEGASARLPTHQAQTPQMSTYITPWMAANLTS
IRESfinder result
IRESfinder score
0.505766699
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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