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mmu_circ9130401M01Rik_804
Basic information of circular RNA
PanCircBase ID:
mmu_circ9130401M01Rik_804
mm39_Chr. Position ID:
chr15|57888669|57895475|-
Gene name:
9130401M01Rik
Transcript:
ENSMUST00000100655.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,3340,5683,6710
Genomic length:
6806
Exon/intron sizes in nt:
133,431,144,96
Flanking exon/introns:
chr15:57885959-57888669|chr15:57895475-57897479
Splice length:
804
Other database IDs:
circAtlas: mmu-9130401M01Rik_0008
circBase: hsa_circ_0002788, circAtlas: hsa-C8orf76_0002, CIRCpedia: HSA_CIRCpedia_59965
Human Ortholog IDs:
Mature spliced Sequence:
TGGTTTTATGAAGAGACAGAATGTAGTGACGATATTGAAGTTCTCACTCTCAAGAAATTCAGAGGGGACCTGGCCTACAGACGACAGGAATACGAGAAAGCCCTGCAGGAATACTCCAGTATCTCCGAACAGTTACCATCTACTAATTTTGCCATGAAAAGGGATGTCCAAGAAGGCCAGGCTCGGTGTCTGGCTCACCTTGGGAGGCATGAGGAGGCGCTGGAGATGGCAGCAGACCTGGAAAGCAAAGCCACCAACACAGACCATCTGACCGTGGTGCTCCACCTCCACCTGGCCGTCTTTTCCAGCCTGCAGAGCCGGGAGCACACGATCCTCTGCCTGCACAAGCTGATTGCTTTGCACCCGCTCAACCCGTGGAGCTGGTGTAAGCTGGCAGAGGCATACCTGAGTCCAGGGCCCGGCCTGCCAGCAGGCGTGTCACCGCAGGGACAGAAGAGTTCTGCCTCAAGTGACAAGGCCGTCGGTCCCTCCTCTGTACACTCGGGAACAGGCTCTCTTTTGTCTTTGCCCACGACCTTGCCTGAGAATGCACTGCTCTCCGTGGAAGCGAGTGGTAGTGCTCAGGAGAATATGCCTTCCCTGGCAAGGCGGAGGGAAGAGGCACAGATGGAGGCTCGGAGGAAAGCATGCGCCTCTCTGCTCCGCGCCAGGCTCCTGCTTCAGCTCGCCCAGTCTCAGCAAACATCATTCGCGTTGGAGAAGAACTTGAGGACTCAGCAGGAAATTGCAGGGAAAGTGAAGGACTTCAACTTTAGGGAAGATACTTTGCTGTTGATGGAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGCAGGAAATTGCAGGGA
59.59
GCCAGGTCCCCTCTGAATTT
59.67
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGCAGGAAATTGCAGGGA
59.59
TTCCTGTCGTCTGTAGGCCA
60.54
160
PCR template sequence:
ATCATTCGCGTTGGAGAAGAACTTGAGGACTCAGCAGGAAATTGCAGGGAAAGTGAAGGACTTCAACTTTAGGGAAGATACTTTGCTGTTGATGGAGGAGTGGTTTTATGAAGAGACAGAATGTAGTGACGATATTGAAGTTCTCACTCTCAAGAAATTCAGAGGGGACCTGGCCTACAGACGACAGGAATACGAGAAAG
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-19b-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-19a-3p(1), mmu-miR-148b-3p(1), mmu-miR-298-5p(1), mmu-miR-370-3p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGATGGAGGAGTGGTTTTATGAAG
siRNA sets
TTCATAAAACCACTCCTCC, AAACCACTCCTCCATCAAC, CTTCATAAAACCACTCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC9130401M01RIK_804_ORF_1
1.0227
0.286485218
0.999749608
1455
ORF sequence:
ATGAAAAGGGATGTCCAAGAAGGCCAGGCTCGGTGTCTGGCTCACCTTGGGAGGCATGAGGAGGCGCTGGAGATGGCAGCAGACCTGGAAAGCAAAGCCACCAACACAGACCATCTGACCGTGGTGCTCCACCTCCACCTGGCCGTCTTTTCCAGCCTGCAGAGCCGGGAGCACACGATCCTCTGCCTGCACAAGCTGATTGCTTTGCACCCGCTCAACCCGTGGAGCTGGTGTAAGCTGGCAGAGGCATACCTGAGTCCAGGGCCCGGCCTGCCAGCAGGCGTGTCACCGCAGGGACAGAAGAGTTCTGCCTCAAGTGACAAGGCCGTCGGTCCCTCCTCTGTACACTCGGGAACAGGCTCTCTTTTGTCTTTGCCCACGACCTTGCCTGAGAATGCACTGCTCTCCGTGGAAGCGAGTGGTAGTGCTCAGGAGAATATGCCTTCCCTGGCAAGGCGGAGGGAAGAGGCACAGATGGAGGCTCGGAGGAAAGCATGCGCCTCTCTGCTCCGCGCCAGGCTCCTGCTTCAGCTCGCCCAGTCTCAGCAAACATCATTCGCGTTGGAGAAGAACTTGAGGACTCAGCAGGAAATTGCAGGGAAAGTGAAGGACTTCAACTTTAGGGAAGATACTTTGCTGTTGATGGAGGAGTGGTTTTATGAAGAGACAGAATGTAGTGACGATATTGAAGTTCTCACTCTCAAGAAATTCAGAGGGGACCTGGCCTACAGACGACAGGAATACGAGAAAGCCCTGCAGGAATACTCCAGTATCTCCGAACAGTTACCATCTACTAATTTTGCCATGAAAAGGGATGTCCAAGAAGGCCAGGCTCGGTGTCTGGCTCACCTTGGGAGGCATGAGGAGGCGCTGGAGATGGCAGCAGACCTGGAAAGCAAAGCCACCAACACAGACCATCTGACCGTGGTGCTCCACCTCCACCTGGCCGTCTTTTCCAGCCTGCAGAGCCGGGAGCACACGATCCTCTGCCTGCACAAGCTGATTGCTTTGCACCCGCTCAACCCGTGGAGCTGGTGTAAGCTGGCAGAGGCATACCTGAGTCCAGGGCCCGGCCTGCCAGCAGGCGTGTCACCGCAGGGACAGAAGAGTTCTGCCTCAAGTGACAAGGCCGTCGGTCCCTCCTCTGTACACTCGGGAACAGGCTCTCTTTTGTCTTTGCCCACGACCTTGCCTGAGAATGCACTGCTCTCCGTGGAAGCGAGTGGTAGTGCTCAGGAGAATATGCCTTCCCTGGCAAGGCGGAGGGAAGAGGCACAGATGGAGGCTCGGAGGAAAGCATGCGCCTCTCTGCTCCGCGCCAGGCTCCTGCTTCAGCTCGCCCAGTCTCAGCAAACATCATTCGCGTTGGAGAAGAACTTGAGGACTCAGCAGGAAATTGCAGGGAAAGTGAAGGACTTCAACTTTAGGGAAGATACTTTGCTGTTGATGGAGGAG
Peptide sequence:
MKRDVQEGQARCLAHLGRHEEALEMAADLESKATNTDHLTVVLHLHLAVFSSLQSREHTILCLHKLIALHPLNPWSWCKLAEAYLSPGPGLPAGVSPQGQKSSASSDKAVGPSSVHSGTGSLLSLPTTLPENALLSVEASGSAQENMPSLARRREEAQMEARRKACASLLRARLLLQLAQSQQTSFALEKNLRTQQEIAGKVKDFNFREDTLLLMEEWFYEETECSDDIEVLTLKKFRGDLAYRRQEYEKALQEYSSISEQLPSTNFAMKRDVQEGQARCLAHLGRHEEALEMAADLESKATNTDHLTVVLHLHLAVFSSLQSREHTILCLHKLIALHPLNPWSWCKLAEAYLSPGPGLPAGVSPQGQKSSASSDKAVGPSSVHSGTGSLLSLPTTLPENALLSVEASGSAQENMPSLARRREEAQMEARRKACASLLRARLLLQLAQSQQTSFALEKNLRTQQEIAGKVKDFNFREDTLLLMEE
IRESfinder result
IRESfinder score
0.475379894
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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