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mmu_circKcnh1_231
Basic information of circular RNA
PanCircBase ID:
mmu_circKcnh1_231
mm39_Chr. Position ID:
chr1|191903640|191907259|+
Gene name:
Kcnh1
Transcript:
ENSMUST00000078470.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,3512
Genomic length:
3619
Exon/intron sizes in nt:
1,24,107
Flanking exon/introns:
chr1:191873394-191903640|chr1:191907259-191921032
Splice length:
231
Other database IDs:
CIRCpedia: MMU_CIRCpedia_12696, circAtlas: mmu-Kcnh1_0011
circAtlas: hsa-KCNH1_0013
Human Ortholog IDs:
Mature spliced Sequence:
ACACTAATTTTGTGTTGGGGAATGCCCAGATAGTCGACTGGCCCATCGTGTACAGCAATGATGGATTCTGCAAGCTGTCTGGCTACCACCGGGCAGAAGTGATGCAGAAAAGCAGCGCCTGCAGTTTTATGTATGGAGAGCTGACTGACAAGGACACAGTTGAAAAGGTTCGCCAGACCTTTGAGAACTACGAGATGAATTCCTTCGAAATTCTGATGTACAAGAAGAACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTCGCCAGACCTTTGAGA
59.97
GTAGCCAGACAGCTTGCAGA
60.04
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTTCGCCAGACCTTTGAG
59.96
GTAGCCAGACAGCTTGCAGA
60.04
152
PCR template sequence:
TATGGAGAGCTGACTGACAAGGACACAGTTGAAAAGGTTCGCCAGACCTTTGAGAACTACGAGATGAATTCCTTCGAAATTCTGATGTACAAGAAGAACAACACTAATTTTGTGTTGGGGAATGCCCAGATAGTCGACTGGCCCATCGTGTACAGCAATGATGGATTCTGCAAGCTGTCTGGCTACCACCGGGCAGAAGT
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
TACAAGAAGAACAACACTAATTTTGT
siRNA sets
ATTAGTGTTGTTCTTCTTG, TTAGTGTTGTTCTTCTTGT, AAATTAGTGTTGTTCTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKCNH1_231_ORF_1
1.1533
0.453160589
0.7927299
360
ORF sequence:
ATGCAGAAAAGCAGCGCCTGCAGTTTTATGTATGGAGAGCTGACTGACAAGGACACAGTTGAAAAGGTTCGCCAGACCTTTGAGAACTACGAGATGAATTCCTTCGAAATTCTGATGTACAAGAAGAACAACACTAATTTTGTGTTGGGGAATGCCCAGATAGTCGACTGGCCCATCGTGTACAGCAATGATGGATTCTGCAAGCTGTCTGGCTACCACCGGGCAGAAGTGATGCAGAAAAGCAGCGCCTGCAGTTTTATGTATGGAGAGCTGACTGACAAGGACACAGTTGAAAAGGTTCGCCAGACCTTTGAGAACTACGAGATGAATTCCTTCGAAATTCTGATGTACAAGAAGAAC
Peptide sequence:
MQKSSACSFMYGELTDKDTVEKVRQTFENYEMNSFEILMYKKNNTNFVLGNAQIVDWPIVYSNDGFCKLSGYHRAEVMQKSSACSFMYGELTDKDTVEKVRQTFENYEMNSFEILMYKKN
IRESfinder result
IRESfinder score
0.314744061
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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