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mmu_circRock1_771
Basic information of circular RNA
PanCircBase ID:
mmu_circRock1_771
mm39_Chr. Position ID:
chr18|10116773|10134500|-
Gene name:
Rock1
Transcript:
ENSMUST00000067947.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
12,11,10,9,8,7,6
Exon/intron offsets:
0,3111,5835,12531,14756,15354,17642
Genomic length:
17727
Exon/intron sizes in nt:
89,61,160,92,139,145,85
Flanking exon/introns:
chr18:10112392-10116773|chr18:10134500-10136095
Splice length:
771
Other database IDs:
circBase: hsa_circ_0108014, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_67873
Human Ortholog IDs:
Mature spliced Sequence:
AGATGTAAAGCCTGATAACATGCTGCTGGATAAGTCTGGACATTTGAAGTTAGCAGATTTTGGTACTTGTATGAAGATGAATAAGGAAGGTATGGTACGATGTGACACAGCAGTTGGAACACCTGATTATATCTCACCCGAAGTATTAAAATCCCAAGGCGGTGATGGCTATTATGGACGAGAGTGTGACTGGTGGTCAGTTGGGGTATTTCTATATGAAATGCTCGTAGGTGACACACCTTTCTATGCAGATTCTTTGGTTGGGACTTACAGTAAAATTATGAACCATAAAAATTCACTTACTTTCCCTGATGATAATGACATATCAAAAGAGGCAAAAAATCTCATTTGTGCCTTCCTTACAGACAGAGAAGTGAGATTGGGCAGAAATGGTGTAGAGGAAATCAAACGTCATCTCTTCTTCAAAAATGATCAGTGGGCTTGGGAAACGCTCCGAGACACTGTAGCACCAGTTGTGCCTGATTTAAGTAGTGACATTGATACTAGTAATTTTGATGACTTAGAAGAAGATAAAGGAGATGAAGAAACATTTCCTATTCCAAAAGCTTTTGTTGGCAATCAGCTACCTTTTGTAGGATTTACATATTATAGCAATCGTAGATACTTACCTTCAGCAAATGCCAGTGAGAACAGATCTAGCTCCAATGTGGATAAAAGCTTGCAGGAAAGTTTACAGAAAACAATCTACAAGCTTGAAGAGCAACTGCATAATGAAATGCAATTAAAAGATGAAATGGAGCAGAAATGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAAGCTTGCAGGAAAGTTTACAGA
59.87
TGTCCAGACTTATCCAGCAGC
59.79
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAAGCTTGCAGGAAAGTTTACA
57.66
TGTCCAGACTTATCCAGCAGC
59.79
140
PCR template sequence:
ATAAAAGCTTGCAGGAAAGTTTACAGAAAACAATCTACAAGCTTGAAGAGCAACTGCATAATGAAATGCAATTAAAAGATGAAATGGAGCAGAAATGCAGAGATGTAAAGCCTGATAACATGCTGCTGGATAAGTCTGGACATTTGAAGTTAGCAGATTTTGGTACTTGTATGAAGATGAATAAGGAAGGTATGGTACGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-139-5p(1), mmu-miR-381-3p(1), mmu-miR-136-5p(1), mmu-miR-107-3p(1), mmu-miR-190b-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGCAGAAATGCAGAGATGTAAAGCCT
siRNA sets
TTACATCTCTGCATTTCTG, TTTACATCTCTGCATTTCT, TACATCTCTGCATTTCTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCROCK1_771_ORF_1
0.9168
0.071121621
0.999544012
1521
ORF sequence:
ATGCTGCTGGATAAGTCTGGACATTTGAAGTTAGCAGATTTTGGTACTTGTATGAAGATGAATAAGGAAGGTATGGTACGATGTGACACAGCAGTTGGAACACCTGATTATATCTCACCCGAAGTATTAAAATCCCAAGGCGGTGATGGCTATTATGGACGAGAGTGTGACTGGTGGTCAGTTGGGGTATTTCTATATGAAATGCTCGTAGGTGACACACCTTTCTATGCAGATTCTTTGGTTGGGACTTACAGTAAAATTATGAACCATAAAAATTCACTTACTTTCCCTGATGATAATGACATATCAAAAGAGGCAAAAAATCTCATTTGTGCCTTCCTTACAGACAGAGAAGTGAGATTGGGCAGAAATGGTGTAGAGGAAATCAAACGTCATCTCTTCTTCAAAAATGATCAGTGGGCTTGGGAAACGCTCCGAGACACTGTAGCACCAGTTGTGCCTGATTTAAGTAGTGACATTGATACTAGTAATTTTGATGACTTAGAAGAAGATAAAGGAGATGAAGAAACATTTCCTATTCCAAAAGCTTTTGTTGGCAATCAGCTACCTTTTGTAGGATTTACATATTATAGCAATCGTAGATACTTACCTTCAGCAAATGCCAGTGAGAACAGATCTAGCTCCAATGTGGATAAAAGCTTGCAGGAAAGTTTACAGAAAACAATCTACAAGCTTGAAGAGCAACTGCATAATGAAATGCAATTAAAAGATGAAATGGAGCAGAAATGCAGAGATGTAAAGCCTGATAACATGCTGCTGGATAAGTCTGGACATTTGAAGTTAGCAGATTTTGGTACTTGTATGAAGATGAATAAGGAAGGTATGGTACGATGTGACACAGCAGTTGGAACACCTGATTATATCTCACCCGAAGTATTAAAATCCCAAGGCGGTGATGGCTATTATGGACGAGAGTGTGACTGGTGGTCAGTTGGGGTATTTCTATATGAAATGCTCGTAGGTGACACACCTTTCTATGCAGATTCTTTGGTTGGGACTTACAGTAAAATTATGAACCATAAAAATTCACTTACTTTCCCTGATGATAATGACATATCAAAAGAGGCAAAAAATCTCATTTGTGCCTTCCTTACAGACAGAGAAGTGAGATTGGGCAGAAATGGTGTAGAGGAAATCAAACGTCATCTCTTCTTCAAAAATGATCAGTGGGCTTGGGAAACGCTCCGAGACACTGTAGCACCAGTTGTGCCTGATTTAAGTAGTGACATTGATACTAGTAATTTTGATGACTTAGAAGAAGATAAAGGAGATGAAGAAACATTTCCTATTCCAAAAGCTTTTGTTGGCAATCAGCTACCTTTTGTAGGATTTACATATTATAGCAATCGTAGATACTTACCTTCAGCAAATGCCAGTGAGAACAGATCTAGCTCCAATGTGGATAAAAGCTTGCAGGAAAGTTTACAGAAAACAATCTACAAGCTTGAAGAGCAACTGCATAATGAAATGCAATTAAAAGATGAAATGGAGCAGAAATGC
Peptide sequence:
MLLDKSGHLKLADFGTCMKMNKEGMVRCDTAVGTPDYISPEVLKSQGGDGYYGRECDWWSVGVFLYEMLVGDTPFYADSLVGTYSKIMNHKNSLTFPDDNDISKEAKNLICAFLTDREVRLGRNGVEEIKRHLFFKNDQWAWETLRDTVAPVVPDLSSDIDTSNFDDLEEDKGDEETFPIPKAFVGNQLPFVGFTYYSNRRYLPSANASENRSSSNVDKSLQESLQKTIYKLEEQLHNEMQLKDEMEQKCRDVKPDNMLLDKSGHLKLADFGTCMKMNKEGMVRCDTAVGTPDYISPEVLKSQGGDGYYGRECDWWSVGVFLYEMLVGDTPFYADSLVGTYSKIMNHKNSLTFPDDNDISKEAKNLICAFLTDREVRLGRNGVEEIKRHLFFKNDQWAWETLRDTVAPVVPDLSSDIDTSNFDDLEEDKGDEETFPIPKAFVGNQLPFVGFTYYSNRRYLPSANASENRSSSNVDKSLQESLQKTIYKLEEQLHNEMQLKDEMEQKC
IRESfinder result
IRESfinder score
0.598029142
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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