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mmu_circArfgef2_1810
Basic information of circular RNA
PanCircBase ID:
mmu_circArfgef2_1810
mm39_Chr. Position ID:
chr2|166698326|166710963|+
Gene name:
Arfgef2
Transcript:
ENSMUST00000099078.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
14,15,16,17,18,19,20,21,22,23,24,25,26
Exon/intron offsets:
0,2856,3379,3907,4118,5177,7150,8286,9273,10505,10739,10881,12485
Genomic length:
12637
Exon/intron sizes in nt:
18,41,12,20,68,51,72,10,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:166696933-166698326|chr2:166710963-166712129
Splice length:
1810
Other database IDs:
circAtlas: mmu-Arfgef2_0056
Human Ortholog IDs:
Mature spliced Sequence:
GTCAGGAGAGGCTCCCAGATCAGGAAATGGGGGACGGAAAAGGCCTTGACATGGCAAGACGGTGCAGCGTGACATCCGTGGAGTCCACAGTGTCCTCGGGGACCCAGACAGCCATTCAGGATGACCCAGAGCAGTTTGAGGTCATCAAACAACAGAAGGAAATCATTGAGCATGGCATTGAGCTCTTCAATAAGAAGCCCAAGCGAGGTATCCAGTTTCTCCAAGAGCAAGGCATGCTGGGAGCAGCTGTAGAAGATATTGCCCAATTTCTGCACCAGGAGGAGCGGCTGGATTCTACCCAGGTTGGCGAGTTTCTGGGAGACAGCACGAGGTTTAACAAGGAGGTGATGTATGCCTATGTGGACCAACTGGATTTCTGTGAAAAAGAGTTCGTCTCAGCCCTGAGGACATTCCTGGAGGGCTTCCGCCTGCCTGGGGAAGCCCAGAAGATTGACCGGTTAATGGAGAAGTTTGCTGCACGATACATAGAATGTAACCAAGGGCAAACCCTGTTTGCTAGTGCGGACACTGCGTATGTCCTGGCGTACTCCATCATCATGCTGACCACAGACCTGCACAGCCCACAGGTAAAGAATAAGATGACAAAAGAGCAGTATATTAAAATGAACCGGGGCATCAACGACAGCAAAGACCTGCCTGAGGAGTACCTGTCCAGCATCTATGACGAGATAGAGGGCAAGAAGATAGCGATGAAGGAGACAAAGGAGCACACAATTGCGACCAAGTCCACCAAGCAGAGTGTAGCTAGTGAAAAGCAGAGGCGGCTGCTGTACAATGTGGAGATGGAGCAGATGGCTAAAACAGCCAAAGCTCTGATGGAGGCCGTGAGCCATGCCAAAGCCCCGTTTACCAGCGCCACACACTTGGACCATGTCCGGCCAATGTTCAAACTGGTGTGGACGCCGCTGCTGGCAGCCTATAGTATTGGCCTGCAGAACTGTGATGACACGGAGGTGGCCTCCCTGTGTTTGGAAGGCATCAGGTGTGCAGTCCGCATTGCCTGCATCTTTGGAATGCAGCTGGAACGAGATGCCTATGTTCAGGCCCTTGCTCGCTTTTCCCTGCTGACAGCCAGCTCCAGCATCACAGAAATGAAGCAGAAAAACATCGACACCATAAAGACACTCATCACTGTGGCTCACACCGATGGCAACTACCTTGGCAACTCCTGGCATGAGATCTTGAAGTGCATCAGCCAGCTGGAGCTTGCTCAGCTGATAGGAACTGGGGTGAAGACTCGCTACCTCTCTGGCTCTGGGCGGGAACGAGAAGGGAGCCTGAAGGGCCACAGTCTGGCAGGAGAAGAATTCATGGGTCTTGGCCTCGGTAACTTGGTGAGTGGTGGTGTAGACAAAAGACAGATGGCCAGCTTCCAGGAGTCGGTTGGTGAAACAAGCTCACAGAGTGTGGTTGTCGCAGTTGACAGAATTTTTACTGGCTCTACCAGACTGGATGGAAATGCAATAGTTGACTTTGTCCGTTGGCTGTGTGCTGTGTCCATGGATGAGCTGGCTTCTCCCCACCATCCTCGAATGTTCAGCCTGCAGAAGATTGTGGAAATATCATACTACAACATGAACAGGATCCGGCTGCAGTGGTCTCGGATATGGCATGTCATTGGAGATCACTTCAATAAGGTCGGCTGTAACCCCAATGAAGATGTGGCCATCTTCGCAGTTGACTCTCTGCGGCAGCTCTCCATGAAGTTCCTGGAGAAGGGAGAATTAGCCAACTTCCGATTTCAGAAGGATTTTCTGAGGCCATTTGAACATATTATGAAGAAAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGCTCTCCATGAAGTTCCT
60.07
GCCATGTCAAGGCCTTTTCC
59.75
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGCTCTCCATGAAGTTC
58.62
TTTCCGTCCCCCATTTCCTG
59.96
140
PCR template sequence:
GGCAGCTCTCCATGAAGTTCCTGGAGAAGGGAGAATTAGCCAACTTCCGATTTCAGAAGGATTTTCTGAGGCCATTTGAACATATTATGAAGAAAAACAGGTCAGGAGAGGCTCCCAGATCAGGAAATGGGGGACGGAAAAGGCCTTGACATGGCAAGACGGTGCAGCGTGACATCCGTGGAGTCCACAGTGTCCTCGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-325-3p(2), mmu-miR-207(2), mmu-miR-532-5p(2), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-221-3p(1), mmu-let-7c-5p(1), mmu-miR-18a-5p(1), mmu-miR-328-3p(1), mmu-miR-196a-5p(1), mmu-miR-326-3p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-let-7d-5p(1), mmu-miR-503-5p(1), mmu-miR-433-5p(1), mmu-miR-22-3p(1), mmu-miR-98-5p(1), mmu-miR-484(1), mmu-miR-490-3p(1), mmu-miR-544-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGAAAAACAGGTCAGGAGAGGCT
siRNA sets
TCTCCTGACCTGTTTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARFGEF2_1810_ORF_1
1.1184
0.39594942
0.99999082
1833
ORF sequence:
ATGGGGGACGGAAAAGGCCTTGACATGGCAAGACGGTGCAGCGTGACATCCGTGGAGTCCACAGTGTCCTCGGGGACCCAGACAGCCATTCAGGATGACCCAGAGCAGTTTGAGGTCATCAAACAACAGAAGGAAATCATTGAGCATGGCATTGAGCTCTTCAATAAGAAGCCCAAGCGAGGTATCCAGTTTCTCCAAGAGCAAGGCATGCTGGGAGCAGCTGTAGAAGATATTGCCCAATTTCTGCACCAGGAGGAGCGGCTGGATTCTACCCAGGTTGGCGAGTTTCTGGGAGACAGCACGAGGTTTAACAAGGAGGTGATGTATGCCTATGTGGACCAACTGGATTTCTGTGAAAAAGAGTTCGTCTCAGCCCTGAGGACATTCCTGGAGGGCTTCCGCCTGCCTGGGGAAGCCCAGAAGATTGACCGGTTAATGGAGAAGTTTGCTGCACGATACATAGAATGTAACCAAGGGCAAACCCTGTTTGCTAGTGCGGACACTGCGTATGTCCTGGCGTACTCCATCATCATGCTGACCACAGACCTGCACAGCCCACAGGTAAAGAATAAGATGACAAAAGAGCAGTATATTAAAATGAACCGGGGCATCAACGACAGCAAAGACCTGCCTGAGGAGTACCTGTCCAGCATCTATGACGAGATAGAGGGCAAGAAGATAGCGATGAAGGAGACAAAGGAGCACACAATTGCGACCAAGTCCACCAAGCAGAGTGTAGCTAGTGAAAAGCAGAGGCGGCTGCTGTACAATGTGGAGATGGAGCAGATGGCTAAAACAGCCAAAGCTCTGATGGAGGCCGTGAGCCATGCCAAAGCCCCGTTTACCAGCGCCACACACTTGGACCATGTCCGGCCAATGTTCAAACTGGTGTGGACGCCGCTGCTGGCAGCCTATAGTATTGGCCTGCAGAACTGTGATGACACGGAGGTGGCCTCCCTGTGTTTGGAAGGCATCAGGTGTGCAGTCCGCATTGCCTGCATCTTTGGAATGCAGCTGGAACGAGATGCCTATGTTCAGGCCCTTGCTCGCTTTTCCCTGCTGACAGCCAGCTCCAGCATCACAGAAATGAAGCAGAAAAACATCGACACCATAAAGACACTCATCACTGTGGCTCACACCGATGGCAACTACCTTGGCAACTCCTGGCATGAGATCTTGAAGTGCATCAGCCAGCTGGAGCTTGCTCAGCTGATAGGAACTGGGGTGAAGACTCGCTACCTCTCTGGCTCTGGGCGGGAACGAGAAGGGAGCCTGAAGGGCCACAGTCTGGCAGGAGAAGAATTCATGGGTCTTGGCCTCGGTAACTTGGTGAGTGGTGGTGTAGACAAAAGACAGATGGCCAGCTTCCAGGAGTCGGTTGGTGAAACAAGCTCACAGAGTGTGGTTGTCGCAGTTGACAGAATTTTTACTGGCTCTACCAGACTGGATGGAAATGCAATAGTTGACTTTGTCCGTTGGCTGTGTGCTGTGTCCATGGATGAGCTGGCTTCTCCCCACCATCCTCGAATGTTCAGCCTGCAGAAGATTGTGGAAATATCATACTACAACATGAACAGGATCCGGCTGCAGTGGTCTCGGATATGGCATGTCATTGGAGATCACTTCAATAAGGTCGGCTGTAACCCCAATGAAGATGTGGCCATCTTCGCAGTTGACTCTCTGCGGCAGCTCTCCATGAAGTTCCTGGAGAAGGGAGAATTAGCCAACTTCCGATTTCAGAAGGATTTTCTGAGGCCATTTGAACATATTATGAAGAAAAACAGGTCAGGAGAGGCTCCCAGATCAGGAAATGGGGGACGGAAAAGGCCTTGA
Peptide sequence:
MGDGKGLDMARRCSVTSVESTVSSGTQTAIQDDPEQFEVIKQQKEIIEHGIELFNKKPKRGIQFLQEQGMLGAAVEDIAQFLHQEERLDSTQVGEFLGDSTRFNKEVMYAYVDQLDFCEKEFVSALRTFLEGFRLPGEAQKIDRLMEKFAARYIECNQGQTLFASADTAYVLAYSIIMLTTDLHSPQVKNKMTKEQYIKMNRGINDSKDLPEEYLSSIYDEIEGKKIAMKETKEHTIATKSTKQSVASEKQRRLLYNVEMEQMAKTAKALMEAVSHAKAPFTSATHLDHVRPMFKLVWTPLLAAYSIGLQNCDDTEVASLCLEGIRCAVRIACIFGMQLERDAYVQALARFSLLTASSSITEMKQKNIDTIKTLITVAHTDGNYLGNSWHEILKCISQLELAQLIGTGVKTRYLSGSGREREGSLKGHSLAGEEFMGLGLGNLVSGGVDKRQMASFQESVGETSSQSVVVAVDRIFTGSTRLDGNAIVDFVRWLCAVSMDELASPHHPRMFSLQKIVEISYYNMNRIRLQWSRIWHVIGDHFNKVGCNPNEDVAIFAVDSLRQLSMKFLEKGELANFRFQKDFLRPFEHIMKKNRSGEAPRSGNGGRKRP
IRESfinder result
IRESfinder score
0.343494466
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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