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mmu_circCcdc186_1172
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc186_1172
mm39_Chr. Position ID:
chr19|56781727|56790421|-
Gene name:
Ccdc186
Transcript:
ENSMUST00000118592.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
14,13,12,11,10,9,8,7
Exon/intron offsets:
0,1794,4148,5271,6768,7617,7871,8589
Genomic length:
8694
Exon/intron sizes in nt:
21,18,11,90,25,61,43,80,00,000
Flanking exon/introns:
chr19:56780592-56781727|chr19:56790421-56795397
Splice length:
1172
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223566, circAtlas: mmu-A630007B06Rik_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_374437
Human Ortholog IDs:
Mature spliced Sequence:
GAAACCAAAGATAAACTCAAAGAAACAACTACAAAACTAACCCAGGCAAAGGAGGAAGCTGAGCAAATCCGGCAGAACTGTCAGGACATGATAAAGACCTATCAGGAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAGATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAGGCGAAATGTCTAGAAGATGAACGCTTAAGAACGGAAGATGAGTTATCAAAGTACAGGGAAATTATCAATCGACAGAAATCTGAAATTCAGAATTTACTGGACAAGGTGAAAATCACAGATCAGTTACATGAGCAGCTTCAAAGTGGTAAACAAGAAATTGAACATTTGAAAGAAGAAATGGAAAGCCTTAATTCTTTGATCAATGACCTCCAGAAAGACATTGAAGGCAGCAGGAAAAGGGAGTCTGAGCTCCTGCTTTTCACAGAAAAGCTCACGAGTAAGAACGCGCAGCTGCAGTCTGAGTCCAGCGCTCTGCAGTCCCAGGTGGACAACCTGTCCTGTACTGAGAGCCAGCTGCAAAGCCAGTGCCAGCAGATGGGACAGGCTAACCGTAATCTGGAGAGCAAGTTGCTCAAAGAGGAAGAGCTTCGAAAAGAGGAAGTACAGACTCTGCAAGCTGAGCTTTCTGCTGCGCAGACCGAAGTCAAAGCCTTGAGTACCCAGGTGGAAGAGCTGAAAGATGAGTTAGTGACGCAGAGGCGCAAACACGCCTCTAACGTCAAGGACCTCAGCAAGCAGCTTCAGCAAGCTCGGAGAAAGTTAGAGCAGACTGAGAATGGAAACCACGATAAAGACATTAGCAGTATGGGAAGTCGCTCGAGTTCATCAGGGTCACTTAATGCTCGAATCAGTGCTGAAGACCGATCTCCAGAGAATACCAGCTCCTCGGTGGCTGTGGACAACTTCCCAGAAGTGGACAAAGCCATGCTGATTGAGAGGATAGTGAGGCTACAGAAAGCCCATGCCCGGAAGAATGAGAAAATAGAATTCATGGAGGACCACATCAAACAGCTGGTTGAAGAAATAAGAAAAAAAACCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCATGCCCGGAAGAATGAGA
59.82
CCTGACAGTTCTGCCGGATT
60.04
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATGCCCGGAAGAATGAGA
59.82
AGTTCTGCCGGATTTGCTCA
59.96
160
PCR template sequence:
TAGTGAGGCTACAGAAAGCCCATGCCCGGAAGAATGAGAAAATAGAATTCATGGAGGACCACATCAAACAGCTGGTTGAAGAAATAAGAAAAAAAACCAAGAAACCAAAGATAAACTCAAAGAAACAACTACAAAACTAACCCAGGCAAAGGAGGAAGCTGAGCAAATCCGGCAGAACTGTCAGGACATGATAAAGACCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-382-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAAAAAACCAAGAAACCAAAGATA
siRNA sets
TTTGGTTTCTTGGTTTTTT, TATCTTTGGTTTCTTGGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC186_1172_ORF_1
1.2035
0.321304724
0.998294594
1125
ORF sequence:
ATGATAAAGACCTATCAGGAATCTGAAGAAATTAAGTCAAATGAGCTTGATGCAAAGCTCAGAGTTACAAAAGGAGAACTTGAAAAACAAATGCAAGAGAAATCTGACCAGCTGGAGATGCATCATGCCAAAATAAAGGAGCTAGAAGATCTAAAGAGGACATTTAAGGAGGGCATGGATGAGCTACGGACATTGAGAACGAAGGCGAAATGTCTAGAAGATGAACGCTTAAGAACGGAAGATGAGTTATCAAAGTACAGGGAAATTATCAATCGACAGAAATCTGAAATTCAGAATTTACTGGACAAGGTGAAAATCACAGATCAGTTACATGAGCAGCTTCAAAGTGGTAAACAAGAAATTGAACATTTGAAAGAAGAAATGGAAAGCCTTAATTCTTTGATCAATGACCTCCAGAAAGACATTGAAGGCAGCAGGAAAAGGGAGTCTGAGCTCCTGCTTTTCACAGAAAAGCTCACGAGTAAGAACGCGCAGCTGCAGTCTGAGTCCAGCGCTCTGCAGTCCCAGGTGGACAACCTGTCCTGTACTGAGAGCCAGCTGCAAAGCCAGTGCCAGCAGATGGGACAGGCTAACCGTAATCTGGAGAGCAAGTTGCTCAAAGAGGAAGAGCTTCGAAAAGAGGAAGTACAGACTCTGCAAGCTGAGCTTTCTGCTGCGCAGACCGAAGTCAAAGCCTTGAGTACCCAGGTGGAAGAGCTGAAAGATGAGTTAGTGACGCAGAGGCGCAAACACGCCTCTAACGTCAAGGACCTCAGCAAGCAGCTTCAGCAAGCTCGGAGAAAGTTAGAGCAGACTGAGAATGGAAACCACGATAAAGACATTAGCAGTATGGGAAGTCGCTCGAGTTCATCAGGGTCACTTAATGCTCGAATCAGTGCTGAAGACCGATCTCCAGAGAATACCAGCTCCTCGGTGGCTGTGGACAACTTCCCAGAAGTGGACAAAGCCATGCTGATTGAGAGGATAGTGAGGCTACAGAAAGCCCATGCCCGGAAGAATGAGAAAATAGAATTCATGGAGGACCACATCAAACAGCTGGTTGAAGAAATAAGAAAAAAAACCAAGAAACCAAAGATAAACTCAAAGAAACAACTACAAAACTAA
Peptide sequence:
MIKTYQESEEIKSNELDAKLRVTKGELEKQMQEKSDQLEMHHAKIKELEDLKRTFKEGMDELRTLRTKAKCLEDERLRTEDELSKYREIINRQKSEIQNLLDKVKITDQLHEQLQSGKQEIEHLKEEMESLNSLINDLQKDIEGSRKRESELLLFTEKLTSKNAQLQSESSALQSQVDNLSCTESQLQSQCQQMGQANRNLESKLLKEEELRKEEVQTLQAELSAAQTEVKALSTQVEELKDELVTQRRKHASNVKDLSKQLQQARRKLEQTENGNHDKDISSMGSRSSSSGSLNARISAEDRSPENTSSSVAVDNFPEVDKAMLIERIVRLQKAHARKNEKIEFMEDHIKQLVEEIRKKTKKPKINSKKQLQN
IRESfinder result
IRESfinder score
0.360828002
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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