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mmu_circRgs7_974
Basic information of circular RNA
PanCircBase ID:
mmu_circRgs7_974
mm39_Chr. Position ID:
chr1|174905754|174950561|-
Gene name:
Rgs7
Transcript:
ENSMUST00000194555.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7
Exon/intron offsets:
0,1216,5783,7927,11230,12805,15615,43539,43706,44742
Genomic length:
44807
Exon/intron sizes in nt:
90,187,126,111,62,99,75,82,77,65
Flanking exon/introns:
chr1:174894260-174905754|chr1:174950561-174977217
Splice length:
974
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218036, circAtlas: mmu-Rgs7_0013
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTGTTTACCTCTGCAAGAGAACAATGCAAAACAAGGCAAGGCTAGAGCTAGCAGATTATGAAGCCGAGAGCCTGGCCAGGCTGCAGAGAGCATTTGCCCGGAAGTGGGAGTTCATTTTTATGCAAGCAGAAGCACAAGCTAAAGTGGACAAGAAGAGAGACAAAATTGAAAGGAAGATCCTCGATAGTCAAGAGAGAGCATTCTGGGATGTCCACAGGCCTGTGCCTGGATGTGTAAATACTACAGAAGTGGACATTAAGAAGTCATCCCGGATGAGAAACCCACACAAAACACGAAAGTCTGTCTATGGTTTACAAAATGACATCCGAAGTCACAGTCCCACCCACACACCTACACCAGAAACCAAGCCTCCTACAGAAGATGAGCTGCACCAACAGATAAAATACTGGCAAATACAGTTAGATAGACATCGGTTAAAAATGTCAAAAGTTGCTGATAGTCTACTAAGCTATACGGAACAGTATGTAGAATATGACCCGTTTCTTGTGCCGCCTGACCCTTCCAATCCATGGCTCTCAGATGATACGACTTTCTGGGAACTTGAAGCAAGCAAAGAACCAAGTCAACAGAGGGTAAAACGATGGGGTTTTGGTATGGATGAGGCATTGAAAGACCCAGTTGGGCGAGAGCAGTTCCTTAAGTTTCTAGAATCAGAATTCAGCTCAGAGAACTTAAGGTTCTGGTTGGCAGTGGAGGACCTGAAGAGAAGGCCTATCCGAGAGGTCCCCTCGAGAGTGCAGGAAATATGGCAAGAATTTCTGGCTCCTGGGGCCCCCAGTGCCATTAACTTGGATTCTAAGAGTTATGACAAGACCACACAGAATGTGAAGGAACCAGGACGATACACATTTGAAGATGCTCAGGAGCATATTTACAAGCTGATGAAGAGCGACTCATACCCCCGCTTTATAAGATCTAGTGCCTACCAGGAACTTCTACAGGCAAAGAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGCGACTCATACCCCC
59.61
CCAGGCTCTCGGCTTCATAA
59.53
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGCGACTCATACCCCC
59.61
CCAGGCTCTCGGCTTCATAAT
59.93
145
PCR template sequence:
AGATGCTCAGGAGCATATTTACAAGCTGATGAAGAGCGACTCATACCCCCGCTTTATAAGATCTAGTGCCTACCAGGAACTTCTACAGGCAAAGAGAAAGCTGTTTACCTCTGCAAGAGAACAATGCAAAACAAGGCAAGGCTAGAGCTAGCAGATTATGAAGCCGAGAGCCTGGCCAGGCTGCAGAGAGCATTTGCCCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-183-5p(1), mmu-miR-324-3p(1), mmu-miR-384-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCAAAGAGAAAGCTGTTTACCTCTG
siRNA sets
AAACAGCTTTCTCTTTGCC, TAAACAGCTTTCTCTTTGC, GTAAACAGCTTTCTCTTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRGS7_974_ORF_1
0.6666
0.147048825
0.976789197
996
ORF sequence:
ATGCAAAACAAGGCAAGGCTAGAGCTAGCAGATTATGAAGCCGAGAGCCTGGCCAGGCTGCAGAGAGCATTTGCCCGGAAGTGGGAGTTCATTTTTATGCAAGCAGAAGCACAAGCTAAAGTGGACAAGAAGAGAGACAAAATTGAAAGGAAGATCCTCGATAGTCAAGAGAGAGCATTCTGGGATGTCCACAGGCCTGTGCCTGGATGTGTAAATACTACAGAAGTGGACATTAAGAAGTCATCCCGGATGAGAAACCCACACAAAACACGAAAGTCTGTCTATGGTTTACAAAATGACATCCGAAGTCACAGTCCCACCCACACACCTACACCAGAAACCAAGCCTCCTACAGAAGATGAGCTGCACCAACAGATAAAATACTGGCAAATACAGTTAGATAGACATCGGTTAAAAATGTCAAAAGTTGCTGATAGTCTACTAAGCTATACGGAACAGTATGTAGAATATGACCCGTTTCTTGTGCCGCCTGACCCTTCCAATCCATGGCTCTCAGATGATACGACTTTCTGGGAACTTGAAGCAAGCAAAGAACCAAGTCAACAGAGGGTAAAACGATGGGGTTTTGGTATGGATGAGGCATTGAAAGACCCAGTTGGGCGAGAGCAGTTCCTTAAGTTTCTAGAATCAGAATTCAGCTCAGAGAACTTAAGGTTCTGGTTGGCAGTGGAGGACCTGAAGAGAAGGCCTATCCGAGAGGTCCCCTCGAGAGTGCAGGAAATATGGCAAGAATTTCTGGCTCCTGGGGCCCCCAGTGCCATTAACTTGGATTCTAAGAGTTATGACAAGACCACACAGAATGTGAAGGAACCAGGACGATACACATTTGAAGATGCTCAGGAGCATATTTACAAGCTGATGAAGAGCGACTCATACCCCCGCTTTATAAGATCTAGTGCCTACCAGGAACTTCTACAGGCAAAGAGAAAGCTGTTTACCTCTGCAAGAGAACAATGCAAAACAAGGCAAGGCTAG
Peptide sequence:
MQNKARLELADYEAESLARLQRAFARKWEFIFMQAEAQAKVDKKRDKIERKILDSQERAFWDVHRPVPGCVNTTEVDIKKSSRMRNPHKTRKSVYGLQNDIRSHSPTHTPTPETKPPTEDELHQQIKYWQIQLDRHRLKMSKVADSLLSYTEQYVEYDPFLVPPDPSNPWLSDDTTFWELEASKEPSQQRVKRWGFGMDEALKDPVGREQFLKFLESEFSSENLRFWLAVEDLKRRPIREVPSRVQEIWQEFLAPGAPSAINLDSKSYDKTTQNVKEPGRYTFEDAQEHIYKLMKSDSYPRFIRSSAYQELLQAKRKLFTSAREQCKTRQG
IRESfinder result
IRESfinder score
0.410292478
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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