top of page
mmu_circErcc5_1282
Basic information of circular RNA
PanCircBase ID:
mmu_circErcc5_1282
mm39_Chr. Position ID:
chr1|44203036|44207042|+
Gene name:
Ercc5
Transcript:
ENSMUST00000027214.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,8
Exon/intron offsets:
0,2932
Genomic length:
4006
Exon/intron sizes in nt:
20,81,074
Flanking exon/introns:
chr1:44201113-44203036|chr1:44207042-44212497
Splice length:
1282
Other database IDs:
circAtlas: mmu-Ercc5_0005
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAGTCTAATGACTTTTCACAGTACCAGCTGAAAGGCTTGCTGAAGAAGAACTACCTAAACCAGCACATAGAAAATGTCCAAAAGGAAATGAACCAGCAGCATTCAGGGCAAATCCAGAGGCAATATCAAGATGAGGGAGGCTTTCTGAAGGAAGTGGAGTCCAGGAGAGTGGTCTCTGAAGACACCTCACATTACATCTTGATAAAAGGTATTCAAGGTAAGAAAGTCATGGATGTGGATTCAGAATCTCTTCCTTCCTCCAGCAACGTACACAGTGTGTCTTCCAACCTGAAGTCATCACCCCACGAGAAAGTGAAGCCGGAGAGAGAGCCAGAGGCCGCGCCTCCTTCTCCAAGAACTCTACTGGCTATTCAGGCAGCCATGCTGGGAAGTAGCTCAGAAGATGAGCCAGAGAGTAGAGAGGGAAGGCAGTCTAAGGAGAGGAACTCAGGGGCCACTGCAGATGCAGGTTCCATCTCACCCCGGACCTGTGCAGCTATTCAGAAAGCTCTGGATGATGATAACGATGAGAAAGTGTCTGGCAGCAGTGATGATCTAGCAGAGAAAATGCTGCTTGGAAGTGGGCTGGAGCAGGAGGAGCATGCTGATGAAACGGCAGAAAGAGGTGGAGGCGTGCCATTTGACACAGCGCCTCTCACACCCAGTGTGACTGAGGTAAAGGAGTGTGTAACCAGTGGCAGCAGTGCAAACGGACAGACAGACTCAGCTCATTCATTTACAACCGCGAGTCACCGATGTGATACTCCAAAAGAAACAGTGTCTCTTGCTCGTGCCGTGAAAGAAGCATCTCAGATAAGCAGTGAATGTGAGGTGGAGGGTAGGCCAGCTGCCCTCTCACCAGCATTCATAGGAACTCCAAGCAGTCATGTCTCTGGAGTCCTCAGTGAAAGGGAACCCACCCTGGCACCTCCGACGACAAGAACACATTCTGATCAGGGGATAGACATACACCCTGAAGATCCTGAGCTACAAAACGGACTCTACCCACTTGAGACCAAGTGTAATTCCTCTCGCCTTTCAAGTGACGATGAAACAGAAGGTGGGCAAAACCCTGCTCCCAAAGCATGTAGTACAGTTCATGTCCCTGCAGAGGCAATGAGTAACTTAGAAAATGCGTTGCCTTCTAATGCTGAAGAACGTGGAGATTTCCAGGAAACCATCCAGCTACGGGAGGTGCCTGAGGCTGCTGCCAGGGAGCTGATTTCAGCTCCAAAGCCCATGGGACCAATGGAGATGGAGTCTGAAGAAAGCGAGTCTGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCAGGGAGCTGATTTCAG
60.03
GCTGCTGGTTCATTTCCTTTTG
58.94
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCAGGGAGCTGATTTCA
60.03
GCTGCTGGTTCATTTCCTTTTG
58.94
175
PCR template sequence:
CAGCTACGGGAGGTGCCTGAGGCTGCTGCCAGGGAGCTGATTTCAGCTCCAAAGCCCATGGGACCAATGGAGATGGAGTCTGAAGAAAGCGAGTCTGATGGAGTCTAATGACTTTTCACAGTACCAGCTGAAAGGCTTGCTGAAGAAGAACTACCTAAACCAGCACATAGAAAATGTCCAAAAGGAAATGAACCAGCAGC
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-124-3p(1), mmu-miR-7b-5p(1), mmu-miR-181a-5p(1), mmu-miR-103-3p(1), mmu-miR-122-5p(1), mmu-miR-322-5p(1), mmu-miR-7a-5p(1), mmu-miR-196a-5p(1), mmu-miR-125b-5p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-107-3p(1), mmu-miR-383-5p(1), mmu-miR-1198-5p(1), mmu-miR-207(1), mmu-miR-484(1), mmu-miR-3105-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCGAGTCTGATGGAGTCTAATGACT
siRNA sets
ATTAGACTCCATCAGACTC, TAGACTCCATCAGACTCGC, TTAGACTCCATCAGACTCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCERCC5_1282_ORF_1
1.1181
0.235908873
0.999094881
1284
ORF sequence:
ATGGAGTCTAATGACTTTTCACAGTACCAGCTGAAAGGCTTGCTGAAGAAGAACTACCTAAACCAGCACATAGAAAATGTCCAAAAGGAAATGAACCAGCAGCATTCAGGGCAAATCCAGAGGCAATATCAAGATGAGGGAGGCTTTCTGAAGGAAGTGGAGTCCAGGAGAGTGGTCTCTGAAGACACCTCACATTACATCTTGATAAAAGGTATTCAAGGTAAGAAAGTCATGGATGTGGATTCAGAATCTCTTCCTTCCTCCAGCAACGTACACAGTGTGTCTTCCAACCTGAAGTCATCACCCCACGAGAAAGTGAAGCCGGAGAGAGAGCCAGAGGCCGCGCCTCCTTCTCCAAGAACTCTACTGGCTATTCAGGCAGCCATGCTGGGAAGTAGCTCAGAAGATGAGCCAGAGAGTAGAGAGGGAAGGCAGTCTAAGGAGAGGAACTCAGGGGCCACTGCAGATGCAGGTTCCATCTCACCCCGGACCTGTGCAGCTATTCAGAAAGCTCTGGATGATGATAACGATGAGAAAGTGTCTGGCAGCAGTGATGATCTAGCAGAGAAAATGCTGCTTGGAAGTGGGCTGGAGCAGGAGGAGCATGCTGATGAAACGGCAGAAAGAGGTGGAGGCGTGCCATTTGACACAGCGCCTCTCACACCCAGTGTGACTGAGGTAAAGGAGTGTGTAACCAGTGGCAGCAGTGCAAACGGACAGACAGACTCAGCTCATTCATTTACAACCGCGAGTCACCGATGTGATACTCCAAAAGAAACAGTGTCTCTTGCTCGTGCCGTGAAAGAAGCATCTCAGATAAGCAGTGAATGTGAGGTGGAGGGTAGGCCAGCTGCCCTCTCACCAGCATTCATAGGAACTCCAAGCAGTCATGTCTCTGGAGTCCTCAGTGAAAGGGAACCCACCCTGGCACCTCCGACGACAAGAACACATTCTGATCAGGGGATAGACATACACCCTGAAGATCCTGAGCTACAAAACGGACTCTACCCACTTGAGACCAAGTGTAATTCCTCTCGCCTTTCAAGTGACGATGAAACAGAAGGTGGGCAAAACCCTGCTCCCAAAGCATGTAGTACAGTTCATGTCCCTGCAGAGGCAATGAGTAACTTAGAAAATGCGTTGCCTTCTAATGCTGAAGAACGTGGAGATTTCCAGGAAACCATCCAGCTACGGGAGGTGCCTGAGGCTGCTGCCAGGGAGCTGATTTCAGCTCCAAAGCCCATGGGACCAATGGAGATGGAGTCTGAAGAAAGCGAGTCTGAT
Peptide sequence:
MESNDFSQYQLKGLLKKNYLNQHIENVQKEMNQQHSGQIQRQYQDEGGFLKEVESRRVVSEDTSHYILIKGIQGKKVMDVDSESLPSSSNVHSVSSNLKSSPHEKVKPEREPEAAPPSPRTLLAIQAAMLGSSSEDEPESREGRQSKERNSGATADAGSISPRTCAAIQKALDDDNDEKVSGSSDDLAEKMLLGSGLEQEEHADETAERGGGVPFDTAPLTPSVTEVKECVTSGSSANGQTDSAHSFTTASHRCDTPKETVSLARAVKEASQISSECEVEGRPAALSPAFIGTPSSHVSGVLSEREPTLAPPTTRTHSDQGIDIHPEDPELQNGLYPLETKCNSSRLSSDDETEGGQNPAPKACSTVHVPAEAMSNLENALPSNAEERGDFQETIQLREVPEAAARELISAPKPMGPMEMESEESESD
IRESfinder result
IRESfinder score
0.438248644
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page