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mmu_circRif1_3367
Basic information of circular RNA
PanCircBase ID:
mmu_circRif1_3367
mm39_Chr. Position ID:
chr2|51999362|52006757|+
Gene name:
Rif1
Transcript:
ENSMUST00000112693.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
29,30,31,32
Exon/intron offsets:
0,560,6897,7317
Genomic length:
7395
Exon/intron sizes in nt:
52,3090,147,78
Flanking exon/introns:
chr2:51999287-51999362|chr2:52006757-52006846
Splice length:
3367
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGAAAGCCTCACTTTAACTGAAAAACCAAAAGAAGATGCCAAGATAATTAAGGAAGAGCAAATGGAAAGTACTATTTTCATCCATCAAGATGCCCCGGAGAACTGTGGAATAGATGAACATTCTGAGAATGCTTCTTTACCAAATTGTGGTGGCTCTGTTGCTGAAACCAATCCAGAAACATTGATCACTGGTTTTGATGCTAGAAAAGAAGTATTAATTTCATCAAAGATATTGTCTGCTGAAAGTTCATCTAGTACAGAAACTTCGGTGGTCAGCAGTAGTTCAGTTTCTAATGCCACTTTTTCTGGAACTCCTCCACAGCCTACAAGTCGGAGACAAACCTTTATTACTTTGGAGAAATTTGATGGCTCAGAAACTAGACCTTTTAGTCCATCCCCCTTGAATAACATATCTTCCACTGTTACAGTGAGAAATAACCAGGATAACACAACTAACACTGACATGCCACCAAAAGCAAGGAAAAGAGAAGTGACGAACTCAAAATCTGATTCAGAAAATTTAGCGAATGCAGGTAAGAAATCAAGTCGGAGATGGAGTAAAGCTGAGCAGTCAGTTACTAAAAAGTCTAAGCCATCACTGACATCTGAACAGGAAGAGCACTCATCCGAAAATAACTCTCCTGATCTGCTCAGCCCAACAGAACATGTGTCAGAAAATGATGATCATCCTTCTGAAGCTACCCTAGAGCATAAAGATGGAGATCCTAAACCAGCAGTAGAAAATGCTTCATTGGAAGACTTAACAACAGAAGAGAAAAATGTAGGCATTAATATGGAATCTAAAGAAAGTACAGCCTCAGTTGTAGCACGAACAGAACAAATAGTAAATGAAGATAGTCAGGCTGCTGCACTAGCCCCAAATCCAAAAACACTCCGACGGTCTTCGAGGCGGCGTTCAGAAGCTGTAGATTCTTGCAGTGACAGCCAAGAGAGAGAGAGTGGTCAGCAAAAAAAGGAAAGACGAAAGGAAGAAGAAAAAATAATCTCCAAGAGTCCGTTGCGTATCAAAGATGATAAGTTGCCCACGCAAAAACTAACTGATGAGTCACCTATACAGGAAAATTTAACTGAAAAGGGAAATACTTTACCTGAGAGAACTTCAGGGGAACCCAGTGTTAATGCTGAAATTGACCAAAATAGAAGAAAACCAGACCTTGAGAATGTTAGTTCTGAAGGAGGTGGTGGTACCCTGGACAATCTAGACAAGTCGTCTGAGAAACCTTTAAGAGGACGGACACGTTATCAAACAAGAAGAGCTTCGCAGGGTTTGATTTCTGCTGTTGAAAACTCAGAATCTGACAGTTCTGAGGCAAAGGAAGAAGTTTCTAGAAAGAAACGATCAGGGAAATGGAAAAATAGAAGCAGTGACAGTGTTGACATTGAAGAACAAGAAGAAAAAAAGGCTGAAGAGGAAGTTATGAAAACTGCAAATCAGACACTCGATGGCCAGGCAGTTCCTGATGTTGATGTAAATGCAGCGGCTCAGGTTTGTGAAAAAAGTACAAATAACAACAGGGTCATCCTCCAGGATTCTGCTGGGCCTGCAGATTCACTGCAAGCTCCACCCAAAGGCGAGGAGAAAAGTAAGATTAACAAATGTGTAGACAGTTCATTTGTAAGTCTACCTGTGCCAGAGTCAAACCTCAGGACTAGGAATGCCAGTAAGAGATTATTATATAAACAAGATAATGATAGTAATGTGAGGGTATCAGACAGCTCTCTGTCTCCCGAAAAATTCACCCAAGTTGAATGCCAACACAAGAGAAGTAGGAGAGTCAGGAGATCTAAAAGTTGTGACTGCTGTGGCGAAAAATCACAGTCCCAGGAAAAGTCATTTATTGGGTTAAAGAACACAGAAAGTTATGCTATAAAGAGTGTGGAGAAAAAAAAGACAGATCTACAAGTACCTGAGACTGCCCCTGAAACTCGTGAAGCTCGTGACCATGCTGAAACAAAGTTGGCAGGCGAAGAGCCTCTTGTGAATTTTCATGTGGGTCTTAAAGAAGAGAATTGTACTACTGGTGATTCAGTTAAGTCTGAGGCTGAGTTGCAAGAAGCTTCCCTTCCACCTGAAATAGTAACTGTGAAAGAGAAGACTTACGATACAGACGCTAGTGAAGCAGTGTCTGAAATCCAAGGGCCATGTAGTGAGAACCACAGCCCTGCTGAGGACCCAGGCTTAAGTGAGTGCAAAGACATTTCACAGAAGCAGCTTTCAGAGAACGGAGAGCTTGACATCAGCGATGTAGGGAAGGCATGCAAAGTCATAGCTGGGTCCAGTCCAGAGGGAGTTGAAACTATGGAATTAAATGTAAGAAATGATGCATTTGTAGCTGCTGACTCTGAAAAGAGTACCCAAATGGATGTTTCTGTAGATGTGGCAACAGAGGAAGATAATAAAAAAGATGAATGTGAAGCAGTCACAACTGAAGTGAATGTTGAAGGAGTAGCCACTGAGGACTTTAATTCAGGTATGGATCTTTCTGATACTCCCATACCTGTAAGCAAGGATGTTGAGACTGAGCACGCAGCTAGTGGGGAAATAGAGGGGGAGAGCAATGAATCTGATTCAGGCTCATGTGAGGAAATGAACAAAGAAATGGGAAGTCACAAAGCCCAGATGAGCACTGAAATTGACAGTGCCAGGGTAAAGGAGACGGACATACTTGCCAGTGCCTCTAAATCTGAAGAAGCGCTGATTGGAAGACTAGACGTCAACACCCAGAGCTTTGTTAGTGACATTGAAATGAGTTCTGGAGAAAGAACTGTTAATTGCAAAACTGAGACATCCATTGAACTTAATAAATTAGATGAAGCAAAATTAAGTGGCAATGAAGCTACAGTGGGAAATGATACTCTGCAGGAAGTTTGCTTTACTTCAGAGAAAGTGGAGAAATTACCACAGTGTCTGCTAGTTCAAGTGGCTTCTGAACTTGGAGCAGAAAGCAATACTACGTCTCCCGAAAAGTTAGAGCTGGATTCTTTTGGATCAGTAAATGAAAGTCCTAGTGGTATGCAGCAGGCACGTTGTGTCTGGTCACCTTTGGCTTCTCCATCCACAAGCATTTTAAAGAGAGGACTAAAAAGATCCCAAGAAGATGAGATCTCACCAGTTAACAAGATTAGACGTGTCTCGTTTGCAGATCCAATATACCAAGCAGGATTGGCAGATGACATTGATAGGCGTTGCTCTGTTGTTAGATCTCATTCTTCAAATAGCTCTCCCATAATAAAAAGTGTTAAAACTTCACCTACTTCACACTCTAAGCATAATACCACTTCAGCCAAAGGATTTCTGTCCCCAGGATCACAGAGCTCTAAATTTAAGAGCCCAAAGAAGTGTTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTCCCCAGGATCACAGA
59.59
CGGGGCATCTTGATGGATGA
59.89
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCCAGGATCACAGAGCTC
60.69
CGGGGCATCTTGATGGATGA
59.89
145
PCR template sequence:
TTCACCTACTTCACACTCTAAGCATAATACCACTTCAGCCAAAGGATTTCTGTCCCCAGGATCACAGAGCTCTAAATTTAAGAGCCCAAAGAAGTGTTTAGGAAAGCCTCACTTTAACTGAAAAACCAAAAGAAGATGCCAAGATAATTAAGGAAGAGCAAATGGAAAGTACTATTTTCATCCATCAAGATGCCCCGGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
25
Interacting miRNAs (#binding sites)
mmu-miR-129-5p(2), mmu-miR-335-3p(2), mmu-miR-181d-5p(2), mmu-miR-23b-3p(1), mmu-miR-134-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-181a-5p(1), mmu-miR-203-3p(1), mmu-miR-10a-5p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-183-5p(1), mmu-miR-758-3p(1), mmu-miR-362-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-190b-5p(1), mmu-miR-669d-5p(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGAAGTGTTTAGGAAAGCCTCACT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRIF1_3367_ORF_1
1.0984
0.059014622
0.999999999
3327
ORF sequence:
ATGGAAAGTACTATTTTCATCCATCAAGATGCCCCGGAGAACTGTGGAATAGATGAACATTCTGAGAATGCTTCTTTACCAAATTGTGGTGGCTCTGTTGCTGAAACCAATCCAGAAACATTGATCACTGGTTTTGATGCTAGAAAAGAAGTATTAATTTCATCAAAGATATTGTCTGCTGAAAGTTCATCTAGTACAGAAACTTCGGTGGTCAGCAGTAGTTCAGTTTCTAATGCCACTTTTTCTGGAACTCCTCCACAGCCTACAAGTCGGAGACAAACCTTTATTACTTTGGAGAAATTTGATGGCTCAGAAACTAGACCTTTTAGTCCATCCCCCTTGAATAACATATCTTCCACTGTTACAGTGAGAAATAACCAGGATAACACAACTAACACTGACATGCCACCAAAAGCAAGGAAAAGAGAAGTGACGAACTCAAAATCTGATTCAGAAAATTTAGCGAATGCAGGTAAGAAATCAAGTCGGAGATGGAGTAAAGCTGAGCAGTCAGTTACTAAAAAGTCTAAGCCATCACTGACATCTGAACAGGAAGAGCACTCATCCGAAAATAACTCTCCTGATCTGCTCAGCCCAACAGAACATGTGTCAGAAAATGATGATCATCCTTCTGAAGCTACCCTAGAGCATAAAGATGGAGATCCTAAACCAGCAGTAGAAAATGCTTCATTGGAAGACTTAACAACAGAAGAGAAAAATGTAGGCATTAATATGGAATCTAAAGAAAGTACAGCCTCAGTTGTAGCACGAACAGAACAAATAGTAAATGAAGATAGTCAGGCTGCTGCACTAGCCCCAAATCCAAAAACACTCCGACGGTCTTCGAGGCGGCGTTCAGAAGCTGTAGATTCTTGCAGTGACAGCCAAGAGAGAGAGAGTGGTCAGCAAAAAAAGGAAAGACGAAAGGAAGAAGAAAAAATAATCTCCAAGAGTCCGTTGCGTATCAAAGATGATAAGTTGCCCACGCAAAAACTAACTGATGAGTCACCTATACAGGAAAATTTAACTGAAAAGGGAAATACTTTACCTGAGAGAACTTCAGGGGAACCCAGTGTTAATGCTGAAATTGACCAAAATAGAAGAAAACCAGACCTTGAGAATGTTAGTTCTGAAGGAGGTGGTGGTACCCTGGACAATCTAGACAAGTCGTCTGAGAAACCTTTAAGAGGACGGACACGTTATCAAACAAGAAGAGCTTCGCAGGGTTTGATTTCTGCTGTTGAAAACTCAGAATCTGACAGTTCTGAGGCAAAGGAAGAAGTTTCTAGAAAGAAACGATCAGGGAAATGGAAAAATAGAAGCAGTGACAGTGTTGACATTGAAGAACAAGAAGAAAAAAAGGCTGAAGAGGAAGTTATGAAAACTGCAAATCAGACACTCGATGGCCAGGCAGTTCCTGATGTTGATGTAAATGCAGCGGCTCAGGTTTGTGAAAAAAGTACAAATAACAACAGGGTCATCCTCCAGGATTCTGCTGGGCCTGCAGATTCACTGCAAGCTCCACCCAAAGGCGAGGAGAAAAGTAAGATTAACAAATGTGTAGACAGTTCATTTGTAAGTCTACCTGTGCCAGAGTCAAACCTCAGGACTAGGAATGCCAGTAAGAGATTATTATATAAACAAGATAATGATAGTAATGTGAGGGTATCAGACAGCTCTCTGTCTCCCGAAAAATTCACCCAAGTTGAATGCCAACACAAGAGAAGTAGGAGAGTCAGGAGATCTAAAAGTTGTGACTGCTGTGGCGAAAAATCACAGTCCCAGGAAAAGTCATTTATTGGGTTAAAGAACACAGAAAGTTATGCTATAAAGAGTGTGGAGAAAAAAAAGACAGATCTACAAGTACCTGAGACTGCCCCTGAAACTCGTGAAGCTCGTGACCATGCTGAAACAAAGTTGGCAGGCGAAGAGCCTCTTGTGAATTTTCATGTGGGTCTTAAAGAAGAGAATTGTACTACTGGTGATTCAGTTAAGTCTGAGGCTGAGTTGCAAGAAGCTTCCCTTCCACCTGAAATAGTAACTGTGAAAGAGAAGACTTACGATACAGACGCTAGTGAAGCAGTGTCTGAAATCCAAGGGCCATGTAGTGAGAACCACAGCCCTGCTGAGGACCCAGGCTTAAGTGAGTGCAAAGACATTTCACAGAAGCAGCTTTCAGAGAACGGAGAGCTTGACATCAGCGATGTAGGGAAGGCATGCAAAGTCATAGCTGGGTCCAGTCCAGAGGGAGTTGAAACTATGGAATTAAATGTAAGAAATGATGCATTTGTAGCTGCTGACTCTGAAAAGAGTACCCAAATGGATGTTTCTGTAGATGTGGCAACAGAGGAAGATAATAAAAAAGATGAATGTGAAGCAGTCACAACTGAAGTGAATGTTGAAGGAGTAGCCACTGAGGACTTTAATTCAGGTATGGATCTTTCTGATACTCCCATACCTGTAAGCAAGGATGTTGAGACTGAGCACGCAGCTAGTGGGGAAATAGAGGGGGAGAGCAATGAATCTGATTCAGGCTCATGTGAGGAAATGAACAAAGAAATGGGAAGTCACAAAGCCCAGATGAGCACTGAAATTGACAGTGCCAGGGTAAAGGAGACGGACATACTTGCCAGTGCCTCTAAATCTGAAGAAGCGCTGATTGGAAGACTAGACGTCAACACCCAGAGCTTTGTTAGTGACATTGAAATGAGTTCTGGAGAAAGAACTGTTAATTGCAAAACTGAGACATCCATTGAACTTAATAAATTAGATGAAGCAAAATTAAGTGGCAATGAAGCTACAGTGGGAAATGATACTCTGCAGGAAGTTTGCTTTACTTCAGAGAAAGTGGAGAAATTACCACAGTGTCTGCTAGTTCAAGTGGCTTCTGAACTTGGAGCAGAAAGCAATACTACGTCTCCCGAAAAGTTAGAGCTGGATTCTTTTGGATCAGTAAATGAAAGTCCTAGTGGTATGCAGCAGGCACGTTGTGTCTGGTCACCTTTGGCTTCTCCATCCACAAGCATTTTAAAGAGAGGACTAAAAAGATCCCAAGAAGATGAGATCTCACCAGTTAACAAGATTAGACGTGTCTCGTTTGCAGATCCAATATACCAAGCAGGATTGGCAGATGACATTGATAGGCGTTGCTCTGTTGTTAGATCTCATTCTTCAAATAGCTCTCCCATAATAAAAAGTGTTAAAACTTCACCTACTTCACACTCTAAGCATAATACCACTTCAGCCAAAGGATTTCTGTCCCCAGGATCACAGAGCTCTAAATTTAAGAGCCCAAAGAAGTGTTTAGGAAAGCCTCACTTTAACTGA
Peptide sequence:
MESTIFIHQDAPENCGIDEHSENASLPNCGGSVAETNPETLITGFDARKEVLISSKILSAESSSSTETSVVSSSSVSNATFSGTPPQPTSRRQTFITLEKFDGSETRPFSPSPLNNISSTVTVRNNQDNTTNTDMPPKARKREVTNSKSDSENLANAGKKSSRRWSKAEQSVTKKSKPSLTSEQEEHSSENNSPDLLSPTEHVSENDDHPSEATLEHKDGDPKPAVENASLEDLTTEEKNVGINMESKESTASVVARTEQIVNEDSQAAALAPNPKTLRRSSRRRSEAVDSCSDSQERESGQQKKERRKEEEKIISKSPLRIKDDKLPTQKLTDESPIQENLTEKGNTLPERTSGEPSVNAEIDQNRRKPDLENVSSEGGGGTLDNLDKSSEKPLRGRTRYQTRRASQGLISAVENSESDSSEAKEEVSRKKRSGKWKNRSSDSVDIEEQEEKKAEEEVMKTANQTLDGQAVPDVDVNAAAQVCEKSTNNNRVILQDSAGPADSLQAPPKGEEKSKINKCVDSSFVSLPVPESNLRTRNASKRLLYKQDNDSNVRVSDSSLSPEKFTQVECQHKRSRRVRRSKSCDCCGEKSQSQEKSFIGLKNTESYAIKSVEKKKTDLQVPETAPETREARDHAETKLAGEEPLVNFHVGLKEENCTTGDSVKSEAELQEASLPPEIVTVKEKTYDTDASEAVSEIQGPCSENHSPAEDPGLSECKDISQKQLSENGELDISDVGKACKVIAGSSPEGVETMELNVRNDAFVAADSEKSTQMDVSVDVATEEDNKKDECEAVTTEVNVEGVATEDFNSGMDLSDTPIPVSKDVETEHAASGEIEGESNESDSGSCEEMNKEMGSHKAQMSTEIDSARVKETDILASASKSEEALIGRLDVNTQSFVSDIEMSSGERTVNCKTETSIELNKLDEAKLSGNEATVGNDTLQEVCFTSEKVEKLPQCLLVQVASELGAESNTTSPEKLELDSFGSVNESPSGMQQARCVWSPLASPSTSILKRGLKRSQEDEISPVNKIRRVSFADPIYQAGLADDIDRRCSVVRSHSSNSSPIIKSVKTSPTSHSKHNTTSAKGFLSPGSQSSKFKSPKKCLGKPHFN
IRESfinder result
IRESfinder score
0.612106939
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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