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mmu_circKat6a_694
Basic information of circular RNA
PanCircBase ID:
mmu_circKat6a_694
mm39_Chr. Position ID:
chr8|23401675|23413672|+
Gene name:
Kat6a
Transcript:
ENSMUST00000110696.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,8,9,10
Exon/intron offsets:
0,2609,7665,11855
Genomic length:
11997
Exon/intron sizes in nt:
317,119,116,142
Flanking exon/introns:
chr8:23400283-23401675|chr8:23413672-23415296
Splice length:
694
Other database IDs:
circBase: mmu_circ_0014731, CIRCpedia: MMU_CIRCpedia_13630, circAtlas: mmu-Kat6a_0013
Human Ortholog IDs:
Mature spliced Sequence:
ATCAAAAGGTCCCTTTAGCAAAGTTCGAACTGGTCCTGGAAGGGGTCGGAAACGTAAAATCACTGTCTCCAGCCAGTCTGCATCATCATCAGAAGAAGGCTATTTAGAGCGGATAGATGGCTTGGACTTCTGCAGAGATAGCAATGCCCCCTTGAAGTTCAACAAGAAAACCAAAGGGCTCATTGATGGCCTTACCAAATTCTTCACCCCTTCTCCTGATGGGCGGAAAGCCCGAGGGGAAGTGGTAGACTACTCTGAGCAATACAGAATCAGGAAAAAGGGCAACAGGAAATCAAGTACTTCAGATTGGCCCACAGACAATCAGGACGGCTGGGAAAGCAAACAAGAAAATGAGGAACGGCTTTTTGGGAGCCAAGAAATCATGACTGAAAGAGATATGGAATTGTTTCGTGATATCCAAGAACAAGCACTGCAGAAGGTCGGAGTAACTGGGCCCCCTGATCCACAAGTCCGCTGTCCCTCTGTCATTGAGTTTGGGAAGTATGAAATCCACACCTGGTATTCCTCTCCGTACCCTCAGGAGTACTCAAGGCTGCCTAAATTGTATCTTTGTGAGTTCTGTCTAAAATATATGAAAAGTAGAACTATTCTACAGCAGCACATGAAGAAATGTGGTTGGTTCCATCCTCCTGCCAATGAGATTTACCGAAAGAATAATATTTCTGTCTTTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTCCATCCTCCTGCCAAT
59.74
TGATGATGCAGACTGGCTGG
60.11
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGTTGGTTCCATCCTCC
59.6
TGATGATGCAGACTGGCTGG
60.11
151
PCR template sequence:
GAAAAGTAGAACTATTCTACAGCAGCACATGAAGAAATGTGGTTGGTTCCATCCTCCTGCCAATGAGATTTACCGAAAGAATAATATTTCTGTCTTTGAGATCAAAAGGTCCCTTTAGCAAAGTTCGAACTGGTCCTGGAAGGGGTCGGAAACGTAAAATCACTGTCTCCAGCCAGTCTGCATCATCATCAGAAGAAGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-9-5p(1), mmu-miR-216a-5p(1), mmu-miR-676-3p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTGTCTTTGAGATCAAAAGGTCCC
siRNA sets
CTTTTGATCTCAAAGACAG, ACCTTTTGATCTCAAAGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKAT6A_694_ORF_1
0.5818
0.132706552
0.836345192
732
ORF sequence:
ATGAGATTTACCGAAAGAATAATATTTCTGTCTTTGAGATCAAAAGGTCCCTTTAGCAAAGTTCGAACTGGTCCTGGAAGGGGTCGGAAACGTAAAATCACTGTCTCCAGCCAGTCTGCATCATCATCAGAAGAAGGCTATTTAGAGCGGATAGATGGCTTGGACTTCTGCAGAGATAGCAATGCCCCCTTGAAGTTCAACAAGAAAACCAAAGGGCTCATTGATGGCCTTACCAAATTCTTCACCCCTTCTCCTGATGGGCGGAAAGCCCGAGGGGAAGTGGTAGACTACTCTGAGCAATACAGAATCAGGAAAAAGGGCAACAGGAAATCAAGTACTTCAGATTGGCCCACAGACAATCAGGACGGCTGGGAAAGCAAACAAGAAAATGAGGAACGGCTTTTTGGGAGCCAAGAAATCATGACTGAAAGAGATATGGAATTGTTTCGTGATATCCAAGAACAAGCACTGCAGAAGGTCGGAGTAACTGGGCCCCCTGATCCACAAGTCCGCTGTCCCTCTGTCATTGAGTTTGGGAAGTATGAAATCCACACCTGGTATTCCTCTCCGTACCCTCAGGAGTACTCAAGGCTGCCTAAATTGTATCTTTGTGAGTTCTGTCTAAAATATATGAAAAGTAGAACTATTCTACAGCAGCACATGAAGAAATGTGGTTGGTTCCATCCTCCTGCCAATGAGATTTACCGAAAGAATAATATTTCTGTCTTTGAG
Peptide sequence:
MRFTERIIFLSLRSKGPFSKVRTGPGRGRKRKITVSSQSASSSEEGYLERIDGLDFCRDSNAPLKFNKKTKGLIDGLTKFFTPSPDGRKARGEVVDYSEQYRIRKKGNRKSSTSDWPTDNQDGWESKQENEERLFGSQEIMTERDMELFRDIQEQALQKVGVTGPPDPQVRCPSVIEFGKYEIHTWYSSPYPQEYSRLPKLYLCEFCLKYMKSRTILQQHMKKCGWFHPPANEIYRKNNISVFE
IRESfinder result
IRESfinder score
0.583614164
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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