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mmu_circRims2_1942
Basic information of circular RNA
PanCircBase ID:
mmu_circRims2_1942
mm39_Chr. Position ID:
chr15|39300392|39339947|+
Gene name:
Rims2
Transcript:
ENSMUST00000082054.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,15227,17363,19681,20767,22592,25501,35337,39383
Genomic length:
39555
Exon/intron sizes in nt:
9,26,20,91,20,10,01,24,00,00,00,00,000
Flanking exon/introns:
chr15:39209016-39300392|chr15:39339947-39341952
Splice length:
1942
Other database IDs:
circAtlas: hsa-RIMS2_0155
Human Ortholog IDs:
Mature spliced Sequence:
AAAACGAAGTCCATCAGTGTCCAGGGATCAAAATCGAAGATACGAGCAAAGTGAAGAAAGAGAGGACTACTCACAGTATGTTCCTTCAGATGGTACAATGCCAAGATCTCCTTCGGATTATGCTGATAGACGATCTCAGCGTGAGCCTCAATTTTATGAAGAACCTGGTCATTTAAATTACAGGGATTCTAACAGGAGAGGCCATAGACATTCCAAAGAGTATATTGTGGATGATGAAGATGTGGAGAGCAGAGATGAATATGAAAGACAAAGGAGAGAGGAGGAATACCAGGCACGCTACAGAAGTGATCCAAATCTGGCCCGGTATCCCGTAAAGCCACAACCCTACGAAGAACAAATGCGCATCCACGCTGAGGTGTCCAGGGCACGACATGAGAGAAGGCACAGTGATGTTTCTTTGGCAAACGCTGAACTAGAAGATTCCAGGATTTCTCTGCTAAGGATGGATAGACCATCAAGGCAAAGATCTGTATCTGAACGTAGAGCTGCAATGGAAAACCAACGATCGTATTCAATGGAAAGAACTCGAGAGGCTCAGGGACAAAGTTCTTATCCACAAAGGACCTCAAATCATAGTCCTCCCACCCCTCGGCGGAGCCCTATACCGCTTGATAGACCAGACATGAGGCGCGCTGACTCCCTACGGAAACAGCACCACTTAGATCCCAGCTCTGCTGTGAGGAAAACGAAGCGAGAAAAAATGGAAACCATGTTAAGGAATGATTCTTTGAGTTCAGACCAGTCCGAGTCAGTGAGGCCGCCCCCACCAAGGCCTCATAAATCCAAGAAAGGAGGTAAAATGCGCCAGGTTTCACTGAGCAGCTCGGAGGAGGAGCTGGCATCCACACCTGAGTATACAAGCTGTGATGATGTGGAGCTGGAAAGCGAGAGTGTGAGTGAGAAAGGGGACAGTCAAAAGGGAAAAAGAAAAACTAGTGAGCAGGGAGTTTTGTCGGATTCTAACACCAGGTCTGAGAGACAAAAGAAAAGGATGTACTATGGTGGCCACTCTTTGGAAGAGGATTTGGAATGGTCTGAGCCTCAGATTAAGGACTCTGGGGTAGATACCTGTAGTAGCACAACCCTTAACGAGGAGCATAGCCATAGTGATAAGCACCCTGTGACCTGGCAGCCATCCAAAGATGGAGATCGCCTAATTGGTCGTATTTTATTAAATAAGCGTTTAAAAGATGGGAGTGTACCTCGAGACTCAGGAGCAATGCTGGGCTTAAAGGTTGTAGGAGGAAAGATGACTGAATCAGGTCGACTTTGTGCATTTATTACCAAAGTAAAAAAAGGAAGTTTAGCTGATACTGTAGGACATCTTAGACCAGGTGATGAAGTCTTGGAATGGAATGGGAGGCTATTGCAAGGAGCCACATTTGAGGAAGTTTACAACATTATTCTAGAATCCAAACCTGAACCACAAGTTGAGCTTGTTGTTTCAAGGCCAATTGGAGATATTCCTAGAATACCTGATAGCACGCATGCACAACTGGAATCCAGTTCTAGCTCATTTGAATCTCAAAAAATGGACCGTCCTTCTATATCCGTTACCTCACCCATGAGTCCTGGCATGCTGAGGGATGTCCCGCAGTTCTTATCTGGACAGCTTTCAATAAAACTATGGTTTGACAAGGTTGGTCACCAGTTGATAGTTACAATTTTGGGAGCAAAGGATCTCCCTTCCAGGGAAGATGGGAGGCCAAGGAATCCTTATGTTAAGATTTACTTCCTTCCAGATAGAAGTGATAAAAATAAGAGAAGAACAAAAACAGTCAAGAAAACTTTGGAACCCAAATGGAACCAGACTTTCATTTATTCTCCTGTCCACCGAAGAGAATTCCGTGAACGAATGCTGGAAATTACCCTTTGGGATCAAGCTAGAGTTCGAGAAGAAGAGAGCGAATTCTTAGGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCGTGAACGAATGCTGGAA
59.97
CCTCTCTTTCTTCACTTTGCTCG
59.57
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCGTGAACGAATGCTGGA
59.97
CCTCTCTTTCTTCACTTTGCTCG
59.57
143
PCR template sequence:
TTCTCCTGTCCACCGAAGAGAATTCCGTGAACGAATGCTGGAAATTACCCTTTGGGATCAAGCTAGAGTTCGAGAAGAAGAGAGCGAATTCTTAGGAGAGAAAACGAAGTCCATCAGTGTCCAGGGATCAAAATCGAAGATACGAGCAAAGTGAAGAAAGAGAGGACTACTCACAGTATGTTCCTTCAGATGGTACAATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-150-5p(1), mmu-miR-146a-5p(1), mmu-miR-320-3p(1), mmu-miR-125b-5p(1), mmu-miR-138-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-670-5p(1), mmu-miR-697(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCTTAGGAGAGAAAACGAAGTCCA
siRNA sets
TGGACTTCGTTTTCTCTCC, CTTCGTTTTCTCTCCTAAG, TTCGTTTTCTCTCCTAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRIMS2_1942_ORF_1
0.8035
0.085402924
0.999963323
1899
ORF sequence:
ATGCCAAGATCTCCTTCGGATTATGCTGATAGACGATCTCAGCGTGAGCCTCAATTTTATGAAGAACCTGGTCATTTAAATTACAGGGATTCTAACAGGAGAGGCCATAGACATTCCAAAGAGTATATTGTGGATGATGAAGATGTGGAGAGCAGAGATGAATATGAAAGACAAAGGAGAGAGGAGGAATACCAGGCACGCTACAGAAGTGATCCAAATCTGGCCCGGTATCCCGTAAAGCCACAACCCTACGAAGAACAAATGCGCATCCACGCTGAGGTGTCCAGGGCACGACATGAGAGAAGGCACAGTGATGTTTCTTTGGCAAACGCTGAACTAGAAGATTCCAGGATTTCTCTGCTAAGGATGGATAGACCATCAAGGCAAAGATCTGTATCTGAACGTAGAGCTGCAATGGAAAACCAACGATCGTATTCAATGGAAAGAACTCGAGAGGCTCAGGGACAAAGTTCTTATCCACAAAGGACCTCAAATCATAGTCCTCCCACCCCTCGGCGGAGCCCTATACCGCTTGATAGACCAGACATGAGGCGCGCTGACTCCCTACGGAAACAGCACCACTTAGATCCCAGCTCTGCTGTGAGGAAAACGAAGCGAGAAAAAATGGAAACCATGTTAAGGAATGATTCTTTGAGTTCAGACCAGTCCGAGTCAGTGAGGCCGCCCCCACCAAGGCCTCATAAATCCAAGAAAGGAGGTAAAATGCGCCAGGTTTCACTGAGCAGCTCGGAGGAGGAGCTGGCATCCACACCTGAGTATACAAGCTGTGATGATGTGGAGCTGGAAAGCGAGAGTGTGAGTGAGAAAGGGGACAGTCAAAAGGGAAAAAGAAAAACTAGTGAGCAGGGAGTTTTGTCGGATTCTAACACCAGGTCTGAGAGACAAAAGAAAAGGATGTACTATGGTGGCCACTCTTTGGAAGAGGATTTGGAATGGTCTGAGCCTCAGATTAAGGACTCTGGGGTAGATACCTGTAGTAGCACAACCCTTAACGAGGAGCATAGCCATAGTGATAAGCACCCTGTGACCTGGCAGCCATCCAAAGATGGAGATCGCCTAATTGGTCGTATTTTATTAAATAAGCGTTTAAAAGATGGGAGTGTACCTCGAGACTCAGGAGCAATGCTGGGCTTAAAGGTTGTAGGAGGAAAGATGACTGAATCAGGTCGACTTTGTGCATTTATTACCAAAGTAAAAAAAGGAAGTTTAGCTGATACTGTAGGACATCTTAGACCAGGTGATGAAGTCTTGGAATGGAATGGGAGGCTATTGCAAGGAGCCACATTTGAGGAAGTTTACAACATTATTCTAGAATCCAAACCTGAACCACAAGTTGAGCTTGTTGTTTCAAGGCCAATTGGAGATATTCCTAGAATACCTGATAGCACGCATGCACAACTGGAATCCAGTTCTAGCTCATTTGAATCTCAAAAAATGGACCGTCCTTCTATATCCGTTACCTCACCCATGAGTCCTGGCATGCTGAGGGATGTCCCGCAGTTCTTATCTGGACAGCTTTCAATAAAACTATGGTTTGACAAGGTTGGTCACCAGTTGATAGTTACAATTTTGGGAGCAAAGGATCTCCCTTCCAGGGAAGATGGGAGGCCAAGGAATCCTTATGTTAAGATTTACTTCCTTCCAGATAGAAGTGATAAAAATAAGAGAAGAACAAAAACAGTCAAGAAAACTTTGGAACCCAAATGGAACCAGACTTTCATTTATTCTCCTGTCCACCGAAGAGAATTCCGTGAACGAATGCTGGAAATTACCCTTTGGGATCAAGCTAGAGTTCGAGAAGAAGAGAGCGAATTCTTAGGAGAGAAAACGAAGTCCATCAGTGTCCAGGGATCAAAATCGAAGATACGAGCAAAGTGA
Peptide sequence:
MPRSPSDYADRRSQREPQFYEEPGHLNYRDSNRRGHRHSKEYIVDDEDVESRDEYERQRREEEYQARYRSDPNLARYPVKPQPYEEQMRIHAEVSRARHERRHSDVSLANAELEDSRISLLRMDRPSRQRSVSERRAAMENQRSYSMERTREAQGQSSYPQRTSNHSPPTPRRSPIPLDRPDMRRADSLRKQHHLDPSSAVRKTKREKMETMLRNDSLSSDQSESVRPPPPRPHKSKKGGKMRQVSLSSSEEELASTPEYTSCDDVELESESVSEKGDSQKGKRKTSEQGVLSDSNTRSERQKKRMYYGGHSLEEDLEWSEPQIKDSGVDTCSSTTLNEEHSHSDKHPVTWQPSKDGDRLIGRILLNKRLKDGSVPRDSGAMLGLKVVGGKMTESGRLCAFITKVKKGSLADTVGHLRPGDEVLEWNGRLLQGATFEEVYNIILESKPEPQVELVVSRPIGDIPRIPDSTHAQLESSSSSFESQKMDRPSISVTSPMSPGMLRDVPQFLSGQLSIKLWFDKVGHQLIVTILGAKDLPSREDGRPRNPYVKIYFLPDRSDKNKRRTKTVKKTLEPKWNQTFIYSPVHRREFRERMLEITLWDQARVREEESEFLGEKTKSISVQGSKSKIRAK
IRESfinder result
IRESfinder score
0.515692907
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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