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mmu_circMbtps1_3595
Basic information of circular RNA
PanCircBase ID:
mmu_circMbtps1_3595
mm39_Chr. Position ID:
chr8|120262013|120272980|-
Gene name:
Mbtps1
Transcript:
ENSMUST00000212601.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,2852,3569,6800,7450,10709
Genomic length:
10967
Exon/intron sizes in nt:
1,03,68,28,51,11,12,04,000
Flanking exon/introns:
chr8:120260211-120262013|chr8:120272980-120274138
Splice length:
3595
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223089, circAtlas: mmu-Mbtps1_0020
Human Ortholog IDs:
Mature spliced Sequence:
AATATATTGTGGCTTTCAACGGATACTTCACAGCCAAAGCTAGAAACTCATTTATTTCAAGTGCTCTGAAAAGCAGTGAAGTGGAAAACTGGAGAATAATACCTCGGAACAACCCATCCAGTGACTACCCTAGTGATTTTGAGGTGATTCAGATAAAAGAGAAGCAGAAGGCGGGGCTGCTCACACTTGAAGATCACCCCAACATCAAGCGGGTGACACCCCAGCGGAAAGTCTTTCGTTCCCTCAAGTTTGCTGAATCCAACCCCATCGTGCCCTGTAATGAAACCCGGTGGAGCCAGAAGTGGCAGTCATCACGTCCCCTGAAAAGAGCCAGTCTCTCCCTGGGCTCTGGATTCTGGCATGCAACAGGAAGACATTCAAGTCGGCGATTGCTGAGAGCCATTCCTCGCCAGGTCGCCCAGACACTGCAGGCAGATGTGCTGTGGCAGATGGGATACACAGGTGCTAATGTCAGAGTTGCTGTTTTTGATACTGGGCTCAGTGAGAAGCATCCGCATTTTAAGAATGTGAAGGAGAGAACCAACTGGACCAATGAGCGGACCCTGGATGATGGGCTAGGCCATGGCACATTCGTTGCAGGTGTGATTGCCAGCATGAGGGAGTGCCAAGGATTTGCTCCAGATGCAGAGCTGCACATCTTCAGGGTCTTTACCAACAATCAGGTATGTGTTTGAAGGGCCTTGAGACGCATGAGCTGTCAGAGGTGAGGTTTGCAGTAAAACACCGTTGCACAGCCACTGCAGACAGCATGCTGCGGTGACAGCCTTCGTTATTGTAACATGTGCCTCACTCAGTGTCTCGTCCAGTCCTGCCTTCTGCCCGTCCCTCCCCGAACTCTGTGCTCATCAGCCTTCCCCAGTCCCGAAGACCTTCCCAAGGCTACTGTGGTTCCTTGATGTCTTTATCCTTCACATCAGGCCTGCCTGAGCCTCTAGCCCATTGTCTAGGATTTCCAGGATGTAGTTTTGGCGTGTGCATGGCATGTTTGCTTCCCAGTTCATTCCCACTGCTGGAGAGTAAACACTATGGTACTGACTGACCTTTGTATCCCAGCAGCTAAGGTTTACAGCTTTGTTTCTTCATTTCATCTAGAAACAGAAAAGGAAGAGGCTGCTGAGAGAGGGAGGGAGAGAGAGAAAGAGTGTTTAATTCATAGTAGTCAGTTATGTGTGTTTGTGTATAGAGGCCATATATTAGCCTAAACAATACTGTTCACTTTGTTTGTTTTTGAGACAGGGTCTCACTATCTTTCTTTGTCTGACCTGGAGCTTATTATGCAGACCAGGCTAGCCTCAAAATCATGAACTCATAGAGATCCTTCTGTCTCAGCCTCCTGAGTGCTGGGATTAAAGGCATGCACCACTGTGCCTGACTTTACCATGTTACTTGAGACAGGCGCTCTCGTTGTTACTAAAGAGAAGAGCAGCAGCAGTTGGTCTAGAAAGGGGCTGCCACACAGTCCCTTCATAAGATGCTATTCATTAGGAGAAAGAGCATTAGACAGAAACAGTATGGTAAGTGGAGATCTAAGCATTATGGGCCCTTAGAAGGAAAGAGGCTTCCCTTTAGATCCTGGAGAGCAGCCTCATTAAGAATGAGACTAAAGAAATAAGGAAAGAGAGGGGCTCACTACTGGGATGGGGTAAGCCAAAGAAGCCTCTTTAGAGAGCAGCTTTCTGACCACTTCCCTCATAAGCACATCCTAAGAACAGAGACATTGTCAGGCTGGCAGTATTTTTCACATGTGATTTAGTTCAGTGTAGCATACAAGGCAAAGAGCTTGGTACCATGAGTTGAGAGCTGTCAAGTCATTGTGTGGGTTGCTCAACTCTGTTCCAGGGAGAGCTGCAGGGACCCTGGCCTGGCTCAGGCTATTGGATCCAAACATGTAGGCCCATGATCAAACAACGGGGACCTAGAGCTTGCCTATTCGGCAAAAAAAGCTCCAGAGACCTGTTCCACCAGTTCTGAGATGTCAGTCATGCACCACTACACCTCGGTCCTACTAATGTGTGCATCAAATTCACATTTGTGTAGCAAGCTCTTGACCCACTTAATTTTTTTTCCTGTTGCTGTAATAAAATACTCTGTCAGAAGCAACTTAATGGAGAAAGGGTTGATTTTGTCTCACAGTTCAAGGTTTTGTTCATCATGGACTGGAAGTGCATGGCAGGAGTTCTGAGGTAGCTGGTCACAAGCATCCACAGTTGCCAAGCAGAACAATGAATGCAGACTAGTGCTCTGCTCTGTTTCCCCAGGGAGCCCTGCCTGTGGCCCTACACACAGTTGAAAGGAGTCTCCTTTGTGAAGTAACCTAGTGAAGATAACTGCCCCTGAGCATGACCAGAGGCCCAGCTCCCAGTTGGTTCTAGATTCTTCAAGTTGACAATTGACCCTAGTGGTCACAACAATGCACCATCTCTCAAGCCCCTATTTGTAAATTGGACTTTGGAGTTCCAACACATCAATAGGCAGCAGCTTTCGGCTCACTCCCACCTCTCTGTGTGGGGAGAATGTTCTTAGCAGCTTATGTTGTCTCTAGGGTTTCTTTACATGTCAGCATGCAATTTAACTCCAAAGGACCTTTCAAGTTACTTCCTTACTGTACTACTCTGCTCACTGTGAACATGACTTCGTGGTTTTGTTGTTGGTCTTTGCTTTAGCTTTGAGACAGGCTCTTACTCTGTAGCCTGACTGGTCTGGAACTCATTATGTAGCCCAGGCTGACCCTGCTGCAGCCTCTTAAATGCTGGGGTTACAATTCTCAGCCACCATGCCTGCCTTAGCTTGTATTTTTAAAAAAACGAACAAAGAAAAACAACAGAAGTATTCCAAAAAGCAGTTTAATTTACATAGTGTAAGGGAACTAGAGGGAGCTGAACACTGGCGTTAGATCTGTGAAGTGACTGCGCTTGCTCCTGTTTGTTCTTTTTAGAAATGAAGGATGTTAGATACTGTAAACTGTAGAAATGATCAATGTCTCAGTGGTGTCTTAGAATGGGTCCTTTTATGAGGGCACTTAGAGGCCTGGGCTAATCCTCAAAGGCCTACGTAAGGTAGGCGGGTGCCTGTCGCCCCTGGAGGGGAGACAGTGTCCAGCACAGCCCACTTCTTGGTGCAGGTTCGAGGACTTAGTTTGTGGTGTGCTGTTTGCATTCTCAGGCGTGCTTTGCTTGGAACTTCAAAGCCCATGCTTTGAAGAGTGTGCTTGTCCTTAGAAAGCAGAGCTGTCACAGCTCTGTGCACGCTCGCAGAGGCCCTCAGAGGACTGTTTCTCTTTAACCAGGTGTCTTACACATCTTGGTTTCTGGATGCCTTCAACTATGCCATCCTAAAGAAGATGGACGTTCTCAACCTTAGCATCGGTGGGCCCGACTTCATGGATCATCCGTTTGTTGACAAGGTGTGGGAATTAACAGCTAACAATGTAATTATGGTTTCTGCTATTGGCAATGATGGACCTCTCTATGGCACTCTGAATAACCCTGCTGATCAGATGGATGTGATTGGAGTGGGTGGCATTGACTTTGAAGATAACATCGCTCGCTTTTCTTCCAGGGGAATGACTACCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGTGGGTGGCATTGACTT
60.25
CCACTTCACTGCTTTTCAGAGC
60.03
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGTGGGTGGCATTGACTT
60.25
TCCAGTTTTCCACTTCACTGCT
60.09
159
PCR template sequence:
TCTGAATAACCCTGCTGATCAGATGGATGTGATTGGAGTGGGTGGCATTGACTTTGAAGATAACATCGCTCGCTTTTCTTCCAGGGGAATGACTACCTGGAATATATTGTGGCTTTCAACGGATACTTCACAGCCAAAGCTAGAAACTCATTTATTTCAAGTGCTCTGAAAAGCAGTGAAGTGGAAAACTGGAGAATAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
44
Interacting miRNAs (#binding sites)
mmu-miR-495-3p(3), mmu-miR-182-5p(2), mmu-miR-155-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-199a-5p(1), mmu-miR-429-3p(1), mmu-miR-375-3p(1), mmu-miR-200b-3p(1), mmu-miR-103-3p(1), mmu-miR-200c-3p(1), mmu-miR-26a-5p(1), mmu-miR-205-5p(1), mmu-miR-15b-5p(1), mmu-miR-33-5p(1), mmu-miR-101b-3p(1), mmu-miR-222-3p(1), mmu-miR-320-3p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-139-5p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-434-5p(1), mmu-miR-26b-5p(1), mmu-miR-96-5p(1), mmu-miR-467b-5p(1), mmu-miR-758-3p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-466d-3p(1), mmu-miR-705(1), mmu-miR-129-5p(1), mmu-miR-532-5p(1), mmu-miR-3065-5p(1), mmu-miR-350-3p(1), mmu-miR-697(1), mmu-miR-1904(1), mmu-miR-3061-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AATGACTACCTGGAATATATTGTGGC
siRNA sets
ATATATTCCAGGTAGTCAT, CAATATATTCCAGGTAGTC, AATATATTCCAGGTAGTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMBTPS1_3595_ORF_1
1.1566
0.105406301
0.344630033
303
ORF sequence:
ATGGACGTTCTCAACCTTAGCATCGGTGGGCCCGACTTCATGGATCATCCGTTTGTTGACAAGGTGTGGGAATTAACAGCTAACAATGTAATTATGGTTTCTGCTATTGGCAATGATGGACCTCTCTATGGCACTCTGAATAACCCTGCTGATCAGATGGATGTGATTGGAGTGGGTGGCATTGACTTTGAAGATAACATCGCTCGCTTTTCTTCCAGGGGAATGACTACCTGGAATATATTGTGGCTTTCAACGGATACTTCACAGCCAAAGCTAGAAACTCATTTATTTCAAGTGCTCTGA
Peptide sequence:
MDVLNLSIGGPDFMDHPFVDKVWELTANNVIMVSAIGNDGPLYGTLNNPADQMDVIGVGGIDFEDNIARFSSRGMTTWNILWLSTDTSQPKLETHLFQVL
IRESfinder result
IRESfinder score
0.728509439
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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