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mmu_circArfgef2_2966
Basic information of circular RNA
PanCircBase ID:
mmu_circArfgef2_2966
mm39_Chr. Position ID:
chr2|166701182|166732357|+
Gene name:
Arfgef2
Transcript:
ENSMUST00000099078.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
22
Exon/intron indexes:
15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30,31,32,33,34,35,36
Exon/intron offsets:
0,523,1051,1262,2321,4294,5430,6417,7649,7883,8025,9629,10947,12196,14313,14600,17230,19008,19255,21909,26516,31006
Genomic length:
31175
Exon/intron sizes in nt:
11,22,06,85,17,21,52,10,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr2:166698510-166701182|chr2:166732357-166733686
Splice length:
2966
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTTCAATAAGAAGCCCAAGCGAGGTATCCAGTTTCTCCAAGAGCAAGGCATGCTGGGAGCAGCTGTAGAAGATATTGCCCAATTTCTGCACCAGGAGGAGCGGCTGGATTCTACCCAGGTTGGCGAGTTTCTGGGAGACAGCACGAGGTTTAACAAGGAGGTGATGTATGCCTATGTGGACCAACTGGATTTCTGTGAAAAAGAGTTCGTCTCAGCCCTGAGGACATTCCTGGAGGGCTTCCGCCTGCCTGGGGAAGCCCAGAAGATTGACCGGTTAATGGAGAAGTTTGCTGCACGATACATAGAATGTAACCAAGGGCAAACCCTGTTTGCTAGTGCGGACACTGCGTATGTCCTGGCGTACTCCATCATCATGCTGACCACAGACCTGCACAGCCCACAGGTAAAGAATAAGATGACAAAAGAGCAGTATATTAAAATGAACCGGGGCATCAACGACAGCAAAGACCTGCCTGAGGAGTACCTGTCCAGCATCTATGACGAGATAGAGGGCAAGAAGATAGCGATGAAGGAGACAAAGGAGCACACAATTGCGACCAAGTCCACCAAGCAGAGTGTAGCTAGTGAAAAGCAGAGGCGGCTGCTGTACAATGTGGAGATGGAGCAGATGGCTAAAACAGCCAAAGCTCTGATGGAGGCCGTGAGCCATGCCAAAGCCCCGTTTACCAGCGCCACACACTTGGACCATGTCCGGCCAATGTTCAAACTGGTGTGGACGCCGCTGCTGGCAGCCTATAGTATTGGCCTGCAGAACTGTGATGACACGGAGGTGGCCTCCCTGTGTTTGGAAGGCATCAGGTGTGCAGTCCGCATTGCCTGCATCTTTGGAATGCAGCTGGAACGAGATGCCTATGTTCAGGCCCTTGCTCGCTTTTCCCTGCTGACAGCCAGCTCCAGCATCACAGAAATGAAGCAGAAAAACATCGACACCATAAAGACACTCATCACTGTGGCTCACACCGATGGCAACTACCTTGGCAACTCCTGGCATGAGATCTTGAAGTGCATCAGCCAGCTGGAGCTTGCTCAGCTGATAGGAACTGGGGTGAAGACTCGCTACCTCTCTGGCTCTGGGCGGGAACGAGAAGGGAGCCTGAAGGGCCACAGTCTGGCAGGAGAAGAATTCATGGGTCTTGGCCTCGGTAACTTGGTGAGTGGTGGTGTAGACAAAAGACAGATGGCCAGCTTCCAGGAGTCGGTTGGTGAAACAAGCTCACAGAGTGTGGTTGTCGCAGTTGACAGAATTTTTACTGGCTCTACCAGACTGGATGGAAATGCAATAGTTGACTTTGTCCGTTGGCTGTGTGCTGTGTCCATGGATGAGCTGGCTTCTCCCCACCATCCTCGAATGTTCAGCCTGCAGAAGATTGTGGAAATATCATACTACAACATGAACAGGATCCGGCTGCAGTGGTCTCGGATATGGCATGTCATTGGAGATCACTTCAATAAGGTCGGCTGTAACCCCAATGAAGATGTGGCCATCTTCGCAGTTGACTCTCTGCGGCAGCTCTCCATGAAGTTCCTGGAGAAGGGAGAATTAGCCAACTTCCGATTTCAGAAGGATTTTCTGAGGCCATTTGAACATATTATGAAGAAAAACAGGTCCCCGACCATCCGGGACATGGTGATCCGATGCATCGCTCAGATGGTGAGCTCCCAGGCAGCCAACATCCGCTCAGGCTGGAAGAACATCTTTGCTGTGTTCCACCAGGCTGCCTCTGACCACGATGGGAACATTGTGGAGCTGGCCTTCCAAACCACAGGCCACATCGTCTCAACCATCTTCCAGCACCACTTCCCTGCAGCCATCGACTCCTTCCAGGATGCTGTGAAGTGCTTGTCTGAGTTCGCCTGCAATGCAGCTTTCCCTGACACCAGCATGGAGGCCATCCGGCTCATCCGCTTCTGTGGGAAATACGTCTCAGAGAGGCCTCGGGTGCTGCAAGAGTACACAAGTGATGATATGAATGTGGCTCCTGGTGACAGGGTCTGGGTCAGAGGCTGGTTTCCCATCCTGTTTGAACTCTCCTGCATCATTAACAGATGCAAGTTAGATGTACGCACAAGGGGACTCACGGTCATGTTTGAGATTATGAAGAGCTATGGCCACACCTTTGCAAAGCACTGGTGGCAGGACCTGTTCAGAATCGTGTTTCGAATTTTTGACAACATGAAACTCCCTGAGCAACAGTCAGAGAAATCAGAGTGGATGACGACCACGTGCAATCATGCACTGTACGCTATTTGTGACGTATTCACCCAGTTCTACGAAGCTTTGCATGAAGTGCTTCTCTCTGATGTGTTTGCGCAGCTGCAGTGGTGCGTGAAACAAGATAATGAGCAGTTGGCCCGATCAGGTACGAACTGCTTAGAGAACCTAGTGATATCCAACGGCGAGAAGTTCAGCCCTGCTGTCTGGGATGAAACCTGCAATTGCATGTTGGATATTTTCAAAACCACCATCCCACATGTTTTGCTGACGTGGAGACCTGCGGGGATGGAGGAGGAGGTGTCAGATAGACATCTGGATGTGGACCTAGACCGCCAGTCTTTAAGCAGCATAGACAGAAACGCCTCCGAGAGAGGACAGAGCCAGCTGTCCAACCCCACTGACGACAGCTGGAAGGGGGCACCGTATGCACATCAGAAACTGCTGGCCAGCCTCCTCATCAAGTGTGTGGTTCAGCTGGAGCTGATCCAGACCATTGACAACATCGTGTTCTACCCTGCCACCAGCAAGAAGGAGGATGCGGAGCACATGGTTGCTGCCCAGCAAGACACCCTCGATGCAGAGATCCACATCGAGACGGAGAATCAGGGCATGTACAAGTTCATGTCCTCCCAGCACCTCTTCAAGCTGCTGGACTGCCTGCAGGAGTCCCACTCCTTCTCCAAAGCCTTCAACTCCAACTATGAGCAGCGGACTGTCCTCTGGCGAGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCACTCCTTCTCCAAAGCC
60.32
CTGGTGCAGAAATTGGGCAA
59.32
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCTCTTCAAGCTGCTGGA
59.96
TGCCTTGCTCTTGGAGAAACT
59.86
147
PCR template sequence:
CAGCACCTCTTCAAGCTGCTGGACTGCCTGCAGGAGTCCCACTCCTTCTCCAAAGCCTTCAACTCCAACTATGAGCAGCGGACTGTCCTCTGGCGAGCTGCTTCAATAAGAAGCCCAAGCGAGGTATCCAGTTTCTCCAAGAGCAAGGCATGCTGGGAGCAGCTGTAGAAGATATTGCCCAATTTCTGCACCAGGAGGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
40
Interacting miRNAs (#binding sites)
mmu-miR-196a-5p(2), mmu-miR-207(2), mmu-miR-532-5p(2), mmu-miR-669d-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-33-5p(1), mmu-miR-19a-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-18a-5p(1), mmu-miR-328-3p(1), mmu-miR-320-3p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-181b-5p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-let-7d-5p(1), mmu-miR-503-5p(1), mmu-miR-149-5p(1), mmu-miR-433-5p(1), mmu-miR-431-5p(1), mmu-miR-363-3p(1), mmu-miR-22-3p(1), mmu-miR-98-5p(1), mmu-miR-325-3p(1), mmu-miR-484(1), mmu-miR-350-3p(1), mmu-miR-540-3p(1), mmu-miR-490-3p(1), mmu-miR-3105-3p(1), mmu-miR-544-5p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTGGCGAGCTGCTTCAATAAGAAG
siRNA sets
TCTTATTGAAGCAGCTCGC, TATTGAAGCAGCTCGCCAG, ATTGAAGCAGCTCGCCAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARFGEF2_2966_ORF_1
1.2008
0.398714342
0.999999998
2985
ORF sequence:
ATGCTGGGAGCAGCTGTAGAAGATATTGCCCAATTTCTGCACCAGGAGGAGCGGCTGGATTCTACCCAGGTTGGCGAGTTTCTGGGAGACAGCACGAGGTTTAACAAGGAGGTGATGTATGCCTATGTGGACCAACTGGATTTCTGTGAAAAAGAGTTCGTCTCAGCCCTGAGGACATTCCTGGAGGGCTTCCGCCTGCCTGGGGAAGCCCAGAAGATTGACCGGTTAATGGAGAAGTTTGCTGCACGATACATAGAATGTAACCAAGGGCAAACCCTGTTTGCTAGTGCGGACACTGCGTATGTCCTGGCGTACTCCATCATCATGCTGACCACAGACCTGCACAGCCCACAGGTAAAGAATAAGATGACAAAAGAGCAGTATATTAAAATGAACCGGGGCATCAACGACAGCAAAGACCTGCCTGAGGAGTACCTGTCCAGCATCTATGACGAGATAGAGGGCAAGAAGATAGCGATGAAGGAGACAAAGGAGCACACAATTGCGACCAAGTCCACCAAGCAGAGTGTAGCTAGTGAAAAGCAGAGGCGGCTGCTGTACAATGTGGAGATGGAGCAGATGGCTAAAACAGCCAAAGCTCTGATGGAGGCCGTGAGCCATGCCAAAGCCCCGTTTACCAGCGCCACACACTTGGACCATGTCCGGCCAATGTTCAAACTGGTGTGGACGCCGCTGCTGGCAGCCTATAGTATTGGCCTGCAGAACTGTGATGACACGGAGGTGGCCTCCCTGTGTTTGGAAGGCATCAGGTGTGCAGTCCGCATTGCCTGCATCTTTGGAATGCAGCTGGAACGAGATGCCTATGTTCAGGCCCTTGCTCGCTTTTCCCTGCTGACAGCCAGCTCCAGCATCACAGAAATGAAGCAGAAAAACATCGACACCATAAAGACACTCATCACTGTGGCTCACACCGATGGCAACTACCTTGGCAACTCCTGGCATGAGATCTTGAAGTGCATCAGCCAGCTGGAGCTTGCTCAGCTGATAGGAACTGGGGTGAAGACTCGCTACCTCTCTGGCTCTGGGCGGGAACGAGAAGGGAGCCTGAAGGGCCACAGTCTGGCAGGAGAAGAATTCATGGGTCTTGGCCTCGGTAACTTGGTGAGTGGTGGTGTAGACAAAAGACAGATGGCCAGCTTCCAGGAGTCGGTTGGTGAAACAAGCTCACAGAGTGTGGTTGTCGCAGTTGACAGAATTTTTACTGGCTCTACCAGACTGGATGGAAATGCAATAGTTGACTTTGTCCGTTGGCTGTGTGCTGTGTCCATGGATGAGCTGGCTTCTCCCCACCATCCTCGAATGTTCAGCCTGCAGAAGATTGTGGAAATATCATACTACAACATGAACAGGATCCGGCTGCAGTGGTCTCGGATATGGCATGTCATTGGAGATCACTTCAATAAGGTCGGCTGTAACCCCAATGAAGATGTGGCCATCTTCGCAGTTGACTCTCTGCGGCAGCTCTCCATGAAGTTCCTGGAGAAGGGAGAATTAGCCAACTTCCGATTTCAGAAGGATTTTCTGAGGCCATTTGAACATATTATGAAGAAAAACAGGTCCCCGACCATCCGGGACATGGTGATCCGATGCATCGCTCAGATGGTGAGCTCCCAGGCAGCCAACATCCGCTCAGGCTGGAAGAACATCTTTGCTGTGTTCCACCAGGCTGCCTCTGACCACGATGGGAACATTGTGGAGCTGGCCTTCCAAACCACAGGCCACATCGTCTCAACCATCTTCCAGCACCACTTCCCTGCAGCCATCGACTCCTTCCAGGATGCTGTGAAGTGCTTGTCTGAGTTCGCCTGCAATGCAGCTTTCCCTGACACCAGCATGGAGGCCATCCGGCTCATCCGCTTCTGTGGGAAATACGTCTCAGAGAGGCCTCGGGTGCTGCAAGAGTACACAAGTGATGATATGAATGTGGCTCCTGGTGACAGGGTCTGGGTCAGAGGCTGGTTTCCCATCCTGTTTGAACTCTCCTGCATCATTAACAGATGCAAGTTAGATGTACGCACAAGGGGACTCACGGTCATGTTTGAGATTATGAAGAGCTATGGCCACACCTTTGCAAAGCACTGGTGGCAGGACCTGTTCAGAATCGTGTTTCGAATTTTTGACAACATGAAACTCCCTGAGCAACAGTCAGAGAAATCAGAGTGGATGACGACCACGTGCAATCATGCACTGTACGCTATTTGTGACGTATTCACCCAGTTCTACGAAGCTTTGCATGAAGTGCTTCTCTCTGATGTGTTTGCGCAGCTGCAGTGGTGCGTGAAACAAGATAATGAGCAGTTGGCCCGATCAGGTACGAACTGCTTAGAGAACCTAGTGATATCCAACGGCGAGAAGTTCAGCCCTGCTGTCTGGGATGAAACCTGCAATTGCATGTTGGATATTTTCAAAACCACCATCCCACATGTTTTGCTGACGTGGAGACCTGCGGGGATGGAGGAGGAGGTGTCAGATAGACATCTGGATGTGGACCTAGACCGCCAGTCTTTAAGCAGCATAGACAGAAACGCCTCCGAGAGAGGACAGAGCCAGCTGTCCAACCCCACTGACGACAGCTGGAAGGGGGCACCGTATGCACATCAGAAACTGCTGGCCAGCCTCCTCATCAAGTGTGTGGTTCAGCTGGAGCTGATCCAGACCATTGACAACATCGTGTTCTACCCTGCCACCAGCAAGAAGGAGGATGCGGAGCACATGGTTGCTGCCCAGCAAGACACCCTCGATGCAGAGATCCACATCGAGACGGAGAATCAGGGCATGTACAAGTTCATGTCCTCCCAGCACCTCTTCAAGCTGCTGGACTGCCTGCAGGAGTCCCACTCCTTCTCCAAAGCCTTCAACTCCAACTATGAGCAGCGGACTGTCCTCTGGCGAGCTGCTTCAATAAGAAGCCCAAGCGAGGTATCCAGTTTCTCCAAGAGCAAGGCATGCTGGGAGCAGCTGTAG
Peptide sequence:
MLGAAVEDIAQFLHQEERLDSTQVGEFLGDSTRFNKEVMYAYVDQLDFCEKEFVSALRTFLEGFRLPGEAQKIDRLMEKFAARYIECNQGQTLFASADTAYVLAYSIIMLTTDLHSPQVKNKMTKEQYIKMNRGINDSKDLPEEYLSSIYDEIEGKKIAMKETKEHTIATKSTKQSVASEKQRRLLYNVEMEQMAKTAKALMEAVSHAKAPFTSATHLDHVRPMFKLVWTPLLAAYSIGLQNCDDTEVASLCLEGIRCAVRIACIFGMQLERDAYVQALARFSLLTASSSITEMKQKNIDTIKTLITVAHTDGNYLGNSWHEILKCISQLELAQLIGTGVKTRYLSGSGREREGSLKGHSLAGEEFMGLGLGNLVSGGVDKRQMASFQESVGETSSQSVVVAVDRIFTGSTRLDGNAIVDFVRWLCAVSMDELASPHHPRMFSLQKIVEISYYNMNRIRLQWSRIWHVIGDHFNKVGCNPNEDVAIFAVDSLRQLSMKFLEKGELANFRFQKDFLRPFEHIMKKNRSPTIRDMVIRCIAQMVSSQAANIRSGWKNIFAVFHQAASDHDGNIVELAFQTTGHIVSTIFQHHFPAAIDSFQDAVKCLSEFACNAAFPDTSMEAIRLIRFCGKYVSERPRVLQEYTSDDMNVAPGDRVWVRGWFPILFELSCIINRCKLDVRTRGLTVMFEIMKSYGHTFAKHWWQDLFRIVFRIFDNMKLPEQQSEKSEWMTTTCNHALYAICDVFTQFYEALHEVLLSDVFAQLQWCVKQDNEQLARSGTNCLENLVISNGEKFSPAVWDETCNCMLDIFKTTIPHVLLTWRPAGMEEEVSDRHLDVDLDRQSLSSIDRNASERGQSQLSNPTDDSWKGAPYAHQKLLASLLIKCVVQLELIQTIDNIVFYPATSKKEDAEHMVAAQQDTLDAEIHIETENQGMYKFMSSQHLFKLLDCLQESHSFSKAFNSNYEQRTVLWRAASIRSPSEVSSFSKSKACWEQL
IRESfinder result
IRESfinder score
0.386005529
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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