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mmu_circGk_963
Basic information of circular RNA
PanCircBase ID:
mmu_circGk_963
mm39_Chr. Position ID:
chrX|84773807|84805013|-
Gene name:
Gk
Transcript:
ENSMUST00000142152.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,681,6631,7112,10093,10865,13512,16023,19410,24130,30373,31132
Genomic length:
31206
Exon/intron sizes in nt:
81,43,68,36,67,110,138,77,84,78,107,74
Flanking exon/introns:
chrX:84759349-84773807|chrX:84805013-84820031
Splice length:
963
Other database IDs:
circBase: mmu_circ_0016388, CIRCpedia: MMU_CIRCpedia_32136, circAtlas: mmu-Gyk_0003
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTCAATTCAAAAACAGCTGAACTTCTTAGTCATCATCAAGTAGAAATAAAACAGGAATTCCCAAGAGAAGGATGGGTAGAACAAGACCCGAAGGAAATTCTGCAGTCTGTTTATGAGTGTATAGAGAAAACGTGTGAGAAACTTGGACAGCTCAATATTGATATTTCCAACATCAAAGCCATTGGTGTCAGCAACCAGAGGGAAACCACAGTAGTCTGGGACAAGGTCACCGGAGAGCCTCTCTATAATGCCGTGGCTGCTCCAGTTTCTCCTGGCTCTTCAGTTCCAGTTGCCGTTGTCCCCTCTGGCTCTTCAGTTCCAGCTGCTGGTGCTTCCTCAGTGTGGCTTGACCTAAGAACCCAGTCTACTGTTGAGAACCTTAGTAAAAGAATTCCAGGAAATAATAACTTTGTCAAGTCCAAGACAGGCCTTCCACTTAGCACGTATTTCAGTGCAGTGAAACTTCGTTGGCTCCTTGACAACGTGAAAAAGGTCCAAGAGGCTGTTGAAGAAAATAGAGCTCTTTTTGGGACCATTGATTCATGGCTTATTTGGAGTTTAACAGGAGGAATCCATGGGGGTGTCCACTGTACAGATGTAACAAATGCAAGCAGGACGATGCTTTTTAACATTCATTCTTTGGAATGGGATAAAGAGCTCTGCGAATTTTTTGGAATTCCAATGGAAATTCTTCCCAACGTTCGGAGTTCTTCTGAGATCTATGGCCTAATGAAAGCTGGGGCCTTGGAAGGTGTACCAATATCTGGGTGTTTGGGGGACCAGTCTGCTGCTTTGGTGGGACAAATGTGCTTCCAGGATGGACAGGCCAAAAACACGTATGGAACAGGGTGCTTCTTATTGTGCAACACGGGCCATAAGTGTGTATTTTCTGAACATGGCCTCCTGACAACCGTAGCATATAAACTTGGCAGAGACAAACCTGTGTATTATGCGTTGGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACATGGCCTCCTGACAACC
60.25
TCCTTCGGGTCTTGTTCTACC
59.1
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAACATGGCCTCCTGACA
59.67
TCCTTCGGGTCTTGTTCTACC
59.1
169
PCR template sequence:
GTGCAACACGGGCCATAAGTGTGTATTTTCTGAACATGGCCTCCTGACAACCGTAGCATATAAACTTGGCAGAGACAAACCTGTGTATTATGCGTTGGAAGTTTTCAATTCAAAAACAGCTGAACTTCTTAGTCATCATCAAGTAGAAATAAAACAGGAATTCCCAAGAGAAGGATGGGTAGAACAAGACCCGAAGGAAA
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-15a-5p(1), mmu-miR-1a-3p(1), mmu-miR-15b-5p(1), mmu-miR-339-5p(1), mmu-miR-10a-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTATGCGTTGGAAGTTTTCAATTCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGK_963_ORF_1
0.8473
0.026018209
0.997015197
1305
ORF sequence:
ATGCTTTTTAACATTCATTCTTTGGAATGGGATAAAGAGCTCTGCGAATTTTTTGGAATTCCAATGGAAATTCTTCCCAACGTTCGGAGTTCTTCTGAGATCTATGGCCTAATGAAAGCTGGGGCCTTGGAAGGTGTACCAATATCTGGGTGTTTGGGGGACCAGTCTGCTGCTTTGGTGGGACAAATGTGCTTCCAGGATGGACAGGCCAAAAACACGTATGGAACAGGGTGCTTCTTATTGTGCAACACGGGCCATAAGTGTGTATTTTCTGAACATGGCCTCCTGACAACCGTAGCATATAAACTTGGCAGAGACAAACCTGTGTATTATGCGTTGGAAGTTTTCAATTCAAAAACAGCTGAACTTCTTAGTCATCATCAAGTAGAAATAAAACAGGAATTCCCAAGAGAAGGATGGGTAGAACAAGACCCGAAGGAAATTCTGCAGTCTGTTTATGAGTGTATAGAGAAAACGTGTGAGAAACTTGGACAGCTCAATATTGATATTTCCAACATCAAAGCCATTGGTGTCAGCAACCAGAGGGAAACCACAGTAGTCTGGGACAAGGTCACCGGAGAGCCTCTCTATAATGCCGTGGCTGCTCCAGTTTCTCCTGGCTCTTCAGTTCCAGTTGCCGTTGTCCCCTCTGGCTCTTCAGTTCCAGCTGCTGGTGCTTCCTCAGTGTGGCTTGACCTAAGAACCCAGTCTACTGTTGAGAACCTTAGTAAAAGAATTCCAGGAAATAATAACTTTGTCAAGTCCAAGACAGGCCTTCCACTTAGCACGTATTTCAGTGCAGTGAAACTTCGTTGGCTCCTTGACAACGTGAAAAAGGTCCAAGAGGCTGTTGAAGAAAATAGAGCTCTTTTTGGGACCATTGATTCATGGCTTATTTGGAGTTTAACAGGAGGAATCCATGGGGGTGTCCACTGTACAGATGTAACAAATGCAAGCAGGACGATGCTTTTTAACATTCATTCTTTGGAATGGGATAAAGAGCTCTGCGAATTTTTTGGAATTCCAATGGAAATTCTTCCCAACGTTCGGAGTTCTTCTGAGATCTATGGCCTAATGAAAGCTGGGGCCTTGGAAGGTGTACCAATATCTGGGTGTTTGGGGGACCAGTCTGCTGCTTTGGTGGGACAAATGTGCTTCCAGGATGGACAGGCCAAAAACACGTATGGAACAGGGTGCTTCTTATTGTGCAACACGGGCCATAAGTGTGTATTTTCTGAACATGGCCTCCTGACAACCGTAGCATATAAACTTGGCAGAGACAAACCTGTGTATTATGCGTTGGAA
Peptide sequence:
MLFNIHSLEWDKELCEFFGIPMEILPNVRSSSEIYGLMKAGALEGVPISGCLGDQSAALVGQMCFQDGQAKNTYGTGCFLLCNTGHKCVFSEHGLLTTVAYKLGRDKPVYYALEVFNSKTAELLSHHQVEIKQEFPREGWVEQDPKEILQSVYECIEKTCEKLGQLNIDISNIKAIGVSNQRETTVVWDKVTGEPLYNAVAAPVSPGSSVPVAVVPSGSSVPAAGASSVWLDLRTQSTVENLSKRIPGNNNFVKSKTGLPLSTYFSAVKLRWLLDNVKKVQEAVEENRALFGTIDSWLIWSLTGGIHGGVHCTDVTNASRTMLFNIHSLEWDKELCEFFGIPMEILPNVRSSSEIYGLMKAGALEGVPISGCLGDQSAALVGQMCFQDGQAKNTYGTGCFLLCNTGHKCVFSEHGLLTTVAYKLGRDKPVYYALE
IRESfinder result
IRESfinder score
0.69071894
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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