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mmu_circSvil_3310
Basic information of circular RNA
PanCircBase ID:
mmu_circSvil_3310
mm39_Chr. Position ID:
chr18|5046588|5064690|+
Gene name:
Svil
Transcript:
ENSMUST00000126977.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14,15,16
Exon/intron offsets:
0,175,2296,7429,9391,10686,11536,12124,12641,13926,15573,16605,17882
Genomic length:
18102
Exon/intron sizes in nt:
5,81,52,61,08,18,70,16,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr18:5040239-5046588|chr18:5064690-5073880
Splice length:
3310
Other database IDs:
circAtlas: mmu-Svil_0006
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TTGCAGAATTAAGAAAAATCTTTGAACCAAAGAGGAAAGACTTTTTAGAAATGAAAAGAAAAGAAAGAATTGCTAGGCGCTTAGAAGGAATAGAAAATGACTCCCAGCCCATCCTGTTGCAGAGCTGCACAGGGCTAGTGACTCATCGGCTGCTAGAAGAAGACACACCCAGATACATGCGTGCCACAGACCCTGCAAGCCCTCATATTGGGCGATCCAAAGAAGAGGAAGACACTCCTGGGTCCTCCCTAGAAAAGCAAACTCCTTCTAAATACTGCATAGAAACCTCAGGCATCCATAGTTCGGGCTCCATGGACACCCACAGTCTGGAGTCCAAAGCGGAAAGGATCGCAAGATACAAAGCAGAGAGGAGGCGGCAGCTGGCCGAAAAGTACGGGCTGACCTTGGACCCAGAAGCTGACTCTGAATACTTGTCTCGATATGCCAAGTCTCGGAAGGACCCAGATGTGACTGAGAGACGAGGAAAAAGTGACAAGCAAGAAGAACAGAGCAAGGATGCCAATTCCCGGCACTCCAGGACAGAGTCAGGGCCCAGGACCAGCTTGGTGGCGTCCCAGGACTGTACCCCGCTGGGAAGCAATATGTCTGACCAGGAGCAGCTGCTCAATGTGGAGAACCAGAGAAGAGTCCAAGATCCCCCACTAGGAGAAGATGGCTCCTCTGCCTTCTTTTCTGAGCGAAGCATTTCCTTCCCCGAAGTGCCCAGGTCTCCAAAGCAGATACCCAGCTCACCACTGCAACAGCCAGCCTCCCCAAACCACCCCGGTGACTCACCACTGCCCACAGAGGCCCGAGCCAGTACAGGGAAGCCCACACATGAGTGGTTTCTGCAGAGAGATTCTGAAGGCGATACACCTTCACTTATCAACTGGCCTTCCAGAGTTAAAGTTAGAGAAAAATTGGTGAAAGAGGAGAGTGCTCGCAGCAGCCCTGAACTCACCTCAGAGTCCTTAACTCAGAGGAGACAGCAGCCGGCACCAGCACATTTCCTGCCTATCCAGTCAGAAAGTTCCACCTTTGATAGGGTCACCAGCAAAGCAGTGAGCTCATTGCAGCCAAGCCAGAGTGGTGTTCTGCCAACTGACCCTGTTCATGCCATCAAGCTGGTGACCATGGATACCCCAGAAAGCACATCTGAATTCAGCTGGGTGGGGTCAGCCACCCCAAAAGTTATAAAATCTACCACCTTGAAGATTCTAGAAGGTGGTTCAAGGGATGCTCCAGTACTCCATATTTGTGAGTCAAAAGCAGAAGATTGGCTCTCCCCAGAACCTCTGGAGAGGAGCCCCAAGTCACTTTTGACCTCAGAAGATGACAGGCTCGTGAGAGGCCACAAAGATCCCTCTGGTAATAAAGACTTGGACAAGGCCATCATTTGCTCCATCGATGTAGAATCTGAGAGGGAGCGGCAAGTTCAACACCTGCCCACTCAGAGAACTGGCCGGAGTGAAATGCTCCTGTATGTTCAGAGTGGTCCTGTGTCCCAAGATGCCACATTGACCAGTCACACAAAGGAGGCATCTCCAAAGAAGCGCAAGGTTCTGGCCCGCTCTCTGTCAGATTACACAGGTCCCCCTCAGCTCCAGGTCCCCAGACACAAGGATGAAGCCCCAAGCCAGGAGCTGGAGCTGCAGAGTTCCAGGGCAGAAGGGCCTGGTGCAGAAGCCAGCGTGCTGGACACCAGAGTCTCCGTCGCCCAGCTCCGAAACATATTTATGGAGTCAACCCGAGCCAGCAAGAAACCTGAACTCCAATCCCGGGTTGAGAGGTCAGCTGAAGGAATTGGCTTGCCCATGGAACGAGAGAGAGGGTCTCGGAAACCAAGACGCTATCTTTCTCCTGGTGAAAGTAGAAAAACTTCTGAGCGATTTAGAACTCAACCTATAACCTCAGCAGAGCGAAAGGAGTCGGATAGGTACCCTTCTGGTTCAGAAATACCAGTGGTCGAGGATGAAGAAAAGGTGGATGAGCGGGCCAAGCTGAGCGTGGCTGCCAAGAGGCTGCTTTTCAGGGAAATGGAGAAATCCTTTGATGAACACACTGTCCCAAAGAGACATTCGAGAAATGCAGCTGTGGAGCAGAGGCTGCGTCGCCTGCAGGACCGTTCACACACACAGCCCATCACCACGGAGGAAGTGGTCATTGCAGCTACTGAACCTATCCCTGCTTCGTGTTCTGGGGTCACCCACCCTGTAACGGCGAGACTTCCTAGCCCCACTGTAGCTAGAAGCAGTGTGCAGCCTGCCAGGTTACAAGCATCTGCTCACCAAAAGGCTTTAGCCAGGGACCAGGCAAATGAGGGCAGAGAGTCTGCCGAACCAGGCGAACCTGATTCCTCCACTCTGAGCTTAGCAGAGAAATTGGCCTTGTTTAACAAATTGTCCCAGCCAGTCTCCAAAGCCATTTCCACCCGAAACAGAATAGATGTGCGGCAGAGGAGGATGAACGCAAGGTACCAGACGCAGCCGGTCACTCTTGGAGAAGTGGAGCAGGTGCAGAGTGGGAAACTCATCTCCTTCTCCCCCACTGTGAACACCTCTGTTTCTATTATGGCCTCTGCGGTTGCTCCCACATATGCAGGGGACCTTCGGAAGCTATCTGTTGACAACAACACAAGTGCCACTGACTATAAGTCTCCTCCTGCGGAAAACTCAGACTCTCCAGTCAGAAGCATTCTGAAACCACAAGCTTGGCGGCCTTTGGTAGAGCACAGTGGGAGCAAAGGAATGCCGGGGGAGTCTGGAAAGACAGAAAGCAAGAATGCTCTGACTGTGGCTGCAGAAGACAGTGGCGTTCAAACACGAGGAGCCTTCGAGGAGGAAGAGGAGCCCTCCTACCCCATCCTTGGCAGAGTCAGGGAGGGTGATGGCCAGAAGGAGCCTAAGCATGTCGTCCTAAGGAGGGGAAGCTTAGAGCTAGGCAATCCTTCTGCTGCACACCTTGGTGATGAGCTGAAGGAAGTTTCCACTGCTAAAAGCAGTTTGCAAGAGAATCTAGACCTGAAGGATAAGCAGGCCTCAGAGGAGAACACAGATGTGGAAACTGTCATGAGGAAGTTCTCACTGAAAGAGTTTGGAGAAACGACTTCTGAGCAGACAGAGGTGGCTGCCAGGAAGGCCTCGGTTCAGATGGCGACCCCAGGGGCCTGGAAGCAGCAGGAGTCCTCTGAGCAACTAGCAGAGAAGCTCTTCAAGAACCCTTGTGCCATGTTTGCTTCTGGAGAGGTCAAGGTGCCAGTAGGCGACAGTTTCCTGGATTCACCCAGCAAAACCATGTCAATCAAAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGTCAAGGTGCCAGTAGG
59.75
TCTATTCCTTCTAAGCGCCT
55.74
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGTCAAGGTGCCAGTAGG
59.75
TTCTATTCCTTCTAAGCGCCT
56.53
163
PCR template sequence:
TCAAGAACCCTTGTGCCATGTTTGCTTCTGGAGAGGTCAAGGTGCCAGTAGGCGACAGTTTCCTGGATTCACCCAGCAAAACCATGTCAATCAAAGAAAGTTGCAGAATTAAGAAAAATCTTTGAACCAAAGAGGAAAGACTTTTTAGAAATGAAAAGAAAAGAAAGAATTGCTAGGCGCTTAGAAGGAATAGAAAATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
20
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(2), mmu-miR-134-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-34c-5p(1), mmu-miR-223-3p(1), mmu-miR-328-3p(1), mmu-miR-298-5p(1), mmu-miR-324-5p(1), mmu-miR-136-5p(1), mmu-miR-434-3p(1), mmu-miR-351-5p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-207(1), mmu-miR-3470b(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAATCAAAGAAAGTTGCAGAATTAAG
siRNA sets
CTTAATTCTGCAACTTTCT, TTCTGCAACTTTCTTTGAT, AATTCTGCAACTTTCTTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSVIL_3310_ORF_1
0.8463
0.248734569
0.999999999
3285
ORF sequence:
ATGAAAAGAAAAGAAAGAATTGCTAGGCGCTTAGAAGGAATAGAAAATGACTCCCAGCCCATCCTGTTGCAGAGCTGCACAGGGCTAGTGACTCATCGGCTGCTAGAAGAAGACACACCCAGATACATGCGTGCCACAGACCCTGCAAGCCCTCATATTGGGCGATCCAAAGAAGAGGAAGACACTCCTGGGTCCTCCCTAGAAAAGCAAACTCCTTCTAAATACTGCATAGAAACCTCAGGCATCCATAGTTCGGGCTCCATGGACACCCACAGTCTGGAGTCCAAAGCGGAAAGGATCGCAAGATACAAAGCAGAGAGGAGGCGGCAGCTGGCCGAAAAGTACGGGCTGACCTTGGACCCAGAAGCTGACTCTGAATACTTGTCTCGATATGCCAAGTCTCGGAAGGACCCAGATGTGACTGAGAGACGAGGAAAAAGTGACAAGCAAGAAGAACAGAGCAAGGATGCCAATTCCCGGCACTCCAGGACAGAGTCAGGGCCCAGGACCAGCTTGGTGGCGTCCCAGGACTGTACCCCGCTGGGAAGCAATATGTCTGACCAGGAGCAGCTGCTCAATGTGGAGAACCAGAGAAGAGTCCAAGATCCCCCACTAGGAGAAGATGGCTCCTCTGCCTTCTTTTCTGAGCGAAGCATTTCCTTCCCCGAAGTGCCCAGGTCTCCAAAGCAGATACCCAGCTCACCACTGCAACAGCCAGCCTCCCCAAACCACCCCGGTGACTCACCACTGCCCACAGAGGCCCGAGCCAGTACAGGGAAGCCCACACATGAGTGGTTTCTGCAGAGAGATTCTGAAGGCGATACACCTTCACTTATCAACTGGCCTTCCAGAGTTAAAGTTAGAGAAAAATTGGTGAAAGAGGAGAGTGCTCGCAGCAGCCCTGAACTCACCTCAGAGTCCTTAACTCAGAGGAGACAGCAGCCGGCACCAGCACATTTCCTGCCTATCCAGTCAGAAAGTTCCACCTTTGATAGGGTCACCAGCAAAGCAGTGAGCTCATTGCAGCCAAGCCAGAGTGGTGTTCTGCCAACTGACCCTGTTCATGCCATCAAGCTGGTGACCATGGATACCCCAGAAAGCACATCTGAATTCAGCTGGGTGGGGTCAGCCACCCCAAAAGTTATAAAATCTACCACCTTGAAGATTCTAGAAGGTGGTTCAAGGGATGCTCCAGTACTCCATATTTGTGAGTCAAAAGCAGAAGATTGGCTCTCCCCAGAACCTCTGGAGAGGAGCCCCAAGTCACTTTTGACCTCAGAAGATGACAGGCTCGTGAGAGGCCACAAAGATCCCTCTGGTAATAAAGACTTGGACAAGGCCATCATTTGCTCCATCGATGTAGAATCTGAGAGGGAGCGGCAAGTTCAACACCTGCCCACTCAGAGAACTGGCCGGAGTGAAATGCTCCTGTATGTTCAGAGTGGTCCTGTGTCCCAAGATGCCACATTGACCAGTCACACAAAGGAGGCATCTCCAAAGAAGCGCAAGGTTCTGGCCCGCTCTCTGTCAGATTACACAGGTCCCCCTCAGCTCCAGGTCCCCAGACACAAGGATGAAGCCCCAAGCCAGGAGCTGGAGCTGCAGAGTTCCAGGGCAGAAGGGCCTGGTGCAGAAGCCAGCGTGCTGGACACCAGAGTCTCCGTCGCCCAGCTCCGAAACATATTTATGGAGTCAACCCGAGCCAGCAAGAAACCTGAACTCCAATCCCGGGTTGAGAGGTCAGCTGAAGGAATTGGCTTGCCCATGGAACGAGAGAGAGGGTCTCGGAAACCAAGACGCTATCTTTCTCCTGGTGAAAGTAGAAAAACTTCTGAGCGATTTAGAACTCAACCTATAACCTCAGCAGAGCGAAAGGAGTCGGATAGGTACCCTTCTGGTTCAGAAATACCAGTGGTCGAGGATGAAGAAAAGGTGGATGAGCGGGCCAAGCTGAGCGTGGCTGCCAAGAGGCTGCTTTTCAGGGAAATGGAGAAATCCTTTGATGAACACACTGTCCCAAAGAGACATTCGAGAAATGCAGCTGTGGAGCAGAGGCTGCGTCGCCTGCAGGACCGTTCACACACACAGCCCATCACCACGGAGGAAGTGGTCATTGCAGCTACTGAACCTATCCCTGCTTCGTGTTCTGGGGTCACCCACCCTGTAACGGCGAGACTTCCTAGCCCCACTGTAGCTAGAAGCAGTGTGCAGCCTGCCAGGTTACAAGCATCTGCTCACCAAAAGGCTTTAGCCAGGGACCAGGCAAATGAGGGCAGAGAGTCTGCCGAACCAGGCGAACCTGATTCCTCCACTCTGAGCTTAGCAGAGAAATTGGCCTTGTTTAACAAATTGTCCCAGCCAGTCTCCAAAGCCATTTCCACCCGAAACAGAATAGATGTGCGGCAGAGGAGGATGAACGCAAGGTACCAGACGCAGCCGGTCACTCTTGGAGAAGTGGAGCAGGTGCAGAGTGGGAAACTCATCTCCTTCTCCCCCACTGTGAACACCTCTGTTTCTATTATGGCCTCTGCGGTTGCTCCCACATATGCAGGGGACCTTCGGAAGCTATCTGTTGACAACAACACAAGTGCCACTGACTATAAGTCTCCTCCTGCGGAAAACTCAGACTCTCCAGTCAGAAGCATTCTGAAACCACAAGCTTGGCGGCCTTTGGTAGAGCACAGTGGGAGCAAAGGAATGCCGGGGGAGTCTGGAAAGACAGAAAGCAAGAATGCTCTGACTGTGGCTGCAGAAGACAGTGGCGTTCAAACACGAGGAGCCTTCGAGGAGGAAGAGGAGCCCTCCTACCCCATCCTTGGCAGAGTCAGGGAGGGTGATGGCCAGAAGGAGCCTAAGCATGTCGTCCTAAGGAGGGGAAGCTTAGAGCTAGGCAATCCTTCTGCTGCACACCTTGGTGATGAGCTGAAGGAAGTTTCCACTGCTAAAAGCAGTTTGCAAGAGAATCTAGACCTGAAGGATAAGCAGGCCTCAGAGGAGAACACAGATGTGGAAACTGTCATGAGGAAGTTCTCACTGAAAGAGTTTGGAGAAACGACTTCTGAGCAGACAGAGGTGGCTGCCAGGAAGGCCTCGGTTCAGATGGCGACCCCAGGGGCCTGGAAGCAGCAGGAGTCCTCTGAGCAACTAGCAGAGAAGCTCTTCAAGAACCCTTGTGCCATGTTTGCTTCTGGAGAGGTCAAGGTGCCAGTAGGCGACAGTTTCCTGGATTCACCCAGCAAAACCATGTCAATCAAAGAAAGTTGCAGAATTAAGAAAAATCTTTGA
Peptide sequence:
MKRKERIARRLEGIENDSQPILLQSCTGLVTHRLLEEDTPRYMRATDPASPHIGRSKEEEDTPGSSLEKQTPSKYCIETSGIHSSGSMDTHSLESKAERIARYKAERRRQLAEKYGLTLDPEADSEYLSRYAKSRKDPDVTERRGKSDKQEEQSKDANSRHSRTESGPRTSLVASQDCTPLGSNMSDQEQLLNVENQRRVQDPPLGEDGSSAFFSERSISFPEVPRSPKQIPSSPLQQPASPNHPGDSPLPTEARASTGKPTHEWFLQRDSEGDTPSLINWPSRVKVREKLVKEESARSSPELTSESLTQRRQQPAPAHFLPIQSESSTFDRVTSKAVSSLQPSQSGVLPTDPVHAIKLVTMDTPESTSEFSWVGSATPKVIKSTTLKILEGGSRDAPVLHICESKAEDWLSPEPLERSPKSLLTSEDDRLVRGHKDPSGNKDLDKAIICSIDVESERERQVQHLPTQRTGRSEMLLYVQSGPVSQDATLTSHTKEASPKKRKVLARSLSDYTGPPQLQVPRHKDEAPSQELELQSSRAEGPGAEASVLDTRVSVAQLRNIFMESTRASKKPELQSRVERSAEGIGLPMERERGSRKPRRYLSPGESRKTSERFRTQPITSAERKESDRYPSGSEIPVVEDEEKVDERAKLSVAAKRLLFREMEKSFDEHTVPKRHSRNAAVEQRLRRLQDRSHTQPITTEEVVIAATEPIPASCSGVTHPVTARLPSPTVARSSVQPARLQASAHQKALARDQANEGRESAEPGEPDSSTLSLAEKLALFNKLSQPVSKAISTRNRIDVRQRRMNARYQTQPVTLGEVEQVQSGKLISFSPTVNTSVSIMASAVAPTYAGDLRKLSVDNNTSATDYKSPPAENSDSPVRSILKPQAWRPLVEHSGSKGMPGESGKTESKNALTVAAEDSGVQTRGAFEEEEEPSYPILGRVREGDGQKEPKHVVLRRGSLELGNPSAAHLGDELKEVSTAKSSLQENLDLKDKQASEENTDVETVMRKFSLKEFGETTSEQTEVAARKASVQMATPGAWKQQESSEQLAEKLFKNPCAMFASGEVKVPVGDSFLDSPSKTMSIKESCRIKKNL
IRESfinder result
IRESfinder score
0.433890372
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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