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mmu_circExoc6_1315
Basic information of circular RNA
PanCircBase ID:
mmu_circExoc6_1315
mm39_Chr. Position ID:
chr19|37558830|37582215|+
Gene name:
Exoc6
Transcript:
ENSMUST00000238954.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13,14,15
Exon/intron offsets:
0,1210,1475,3329,6553,8037,11810,15428,17255,17434,19468,20485,23279
Genomic length:
23385
Exon/intron sizes in nt:
17,24,89,14,62,05,15,60,00,00,00,00,00,00,000
Flanking exon/introns:
chr19:37525347-37558830|chr19:37582215-37585542
Splice length:
1315
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_129187
Human Ortholog IDs:
Mature spliced Sequence:
ATCTGTGTATGATGATCAGCCAAACGCACACAAGAAGTTTATGGAAAAGCTAGACGCTTGTATCCGCAATCATGACAAGGAAATTGAAAAAATGTGTAACTTCCATCACCAGGGCTTTGTGGATGCGATTACGGAACTCCTCAAAGTAAGGGCCGATGCGGAAAAACTGAAGGTGCAGGTTACCGATACCAACCGAAGGTTTCAAGATGCAGGAAAAGAGGTGATAATCCAAACAGAAGATATTATTCGGTGTAGGATTCAGCAGAGAAATATTACAACCGTAGTAGAGAAATTACAGTTATGCCTCCCAGTGTTGGAGATGTACAGTAAGCTGAAGGAACAGATGAGCATGAAAAGGTATTACTCCGCACTTAAAACAATGGAACAGCTAGAGAATGTGTACTTTCCCCGGGTCAGCCAGTACCGCTTCTGCCAGCTCATGATGGAGACACTCCCTAAACTCCGGGAAGACATCAAAGACATCTCCATGTCTGATCTCAAGGACTTTCTGGAAAGCATCCGAAAGCATTCTGACAAAATAGGTGAAGCAGCCATGAAGCAGGCACAACAGCAGAAGAGCTTCAGTGTTGCTCTGCAGAAGCAAAATAATATGAGGTTTGGGAAAAACATGCATGTAAATAATGACAGGATTCTAGAAGAGAAGAGTGATGTTATACCGAAGCATGCACTTGAAGAGGAGGCGGAGAACGACGAGGAGGTCTTAACTGTTCAAGATCTCGTTGATTTTTCCCCTGTTTACCGATGCTTGCACATTTATTCTGCTTTGGGTGATGAAGAAACATTTGAAAATTATTACCGGAAGCAAAGGAAGAAGCAGGCACGCCTGGTTCTGCAGCCGCAGTCGAGTGTGCATGAAACAGTTGATGGCTATAGAAGATATTTCACTCAAATTGTAGGGTTCTTTGTTGTGGAAGATCACATTTTACACGTGACCCAAGGATTAGTAACCAGGGTCTACACTGAGGAACTCTGGAACATGGCCCTCTCAAAGATAATTGCTGTCCTCAGAGCTCACTCATCTTACTGCACTGACCCTGACCTTGTTCTGGAGCTGAAGAATCTCATCGTAATTTTTGCAGACACTCTGCAGGGTTATGGCTTCCCAGTCAACCGGCTCTTTGACCTTTTATTCGAAATAAGAGATCAATATAACGAAACACTGCTGAAGAAGTGGGCTGGTATTTTCAGGGACATTTTTGAAGAAGATAATTACAGCCCCATCCCTATTGGCAGTGAGGAAGAATATAAAGTAGTCATCAGTAGATTCCCGTTTCAGGATCCAGACCTCGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCATCCCTATTGGCAGTG
60.18
TGATTGCGGATACAAGCGTCT
60.13
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCATCCCTATTGGCAGTG
60.18
TGATTGCGGATACAAGCGTC
58.71
151
PCR template sequence:
TTTTGAAGAAGATAATTACAGCCCCATCCCTATTGGCAGTGAGGAAGAATATAAAGTAGTCATCAGTAGATTCCCGTTTCAGGATCCAGACCTCGAAAAGATCTGTGTATGATGATCAGCCAAACGCACACAAGAAGTTTATGGAAAAGCTAGACGCTTGTATCCGCAATCATGACAAGGAAATTGAAAAAATGTGTAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-141-3p(1), mmu-miR-122-5p(1), mmu-miR-148a-3p(1), mmu-miR-381-3p(1), mmu-miR-467b-5p(1), mmu-miR-362-5p(1), mmu-miR-383-5p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGACCTCGAAAAGATCTGTGTATGAT
siRNA sets
TCATACACAGATCTTTTCG, TACACAGATCTTTTCGAGG, CATACACAGATCTTTTCGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEXOC6_1315_ORF_1
1.2881
0.220647998
0.999311568
1287
ORF sequence:
ATGGAAAAGCTAGACGCTTGTATCCGCAATCATGACAAGGAAATTGAAAAAATGTGTAACTTCCATCACCAGGGCTTTGTGGATGCGATTACGGAACTCCTCAAAGTAAGGGCCGATGCGGAAAAACTGAAGGTGCAGGTTACCGATACCAACCGAAGGTTTCAAGATGCAGGAAAAGAGGTGATAATCCAAACAGAAGATATTATTCGGTGTAGGATTCAGCAGAGAAATATTACAACCGTAGTAGAGAAATTACAGTTATGCCTCCCAGTGTTGGAGATGTACAGTAAGCTGAAGGAACAGATGAGCATGAAAAGGTATTACTCCGCACTTAAAACAATGGAACAGCTAGAGAATGTGTACTTTCCCCGGGTCAGCCAGTACCGCTTCTGCCAGCTCATGATGGAGACACTCCCTAAACTCCGGGAAGACATCAAAGACATCTCCATGTCTGATCTCAAGGACTTTCTGGAAAGCATCCGAAAGCATTCTGACAAAATAGGTGAAGCAGCCATGAAGCAGGCACAACAGCAGAAGAGCTTCAGTGTTGCTCTGCAGAAGCAAAATAATATGAGGTTTGGGAAAAACATGCATGTAAATAATGACAGGATTCTAGAAGAGAAGAGTGATGTTATACCGAAGCATGCACTTGAAGAGGAGGCGGAGAACGACGAGGAGGTCTTAACTGTTCAAGATCTCGTTGATTTTTCCCCTGTTTACCGATGCTTGCACATTTATTCTGCTTTGGGTGATGAAGAAACATTTGAAAATTATTACCGGAAGCAAAGGAAGAAGCAGGCACGCCTGGTTCTGCAGCCGCAGTCGAGTGTGCATGAAACAGTTGATGGCTATAGAAGATATTTCACTCAAATTGTAGGGTTCTTTGTTGTGGAAGATCACATTTTACACGTGACCCAAGGATTAGTAACCAGGGTCTACACTGAGGAACTCTGGAACATGGCCCTCTCAAAGATAATTGCTGTCCTCAGAGCTCACTCATCTTACTGCACTGACCCTGACCTTGTTCTGGAGCTGAAGAATCTCATCGTAATTTTTGCAGACACTCTGCAGGGTTATGGCTTCCCAGTCAACCGGCTCTTTGACCTTTTATTCGAAATAAGAGATCAATATAACGAAACACTGCTGAAGAAGTGGGCTGGTATTTTCAGGGACATTTTTGAAGAAGATAATTACAGCCCCATCCCTATTGGCAGTGAGGAAGAATATAAAGTAGTCATCAGTAGATTCCCGTTTCAGGATCCAGACCTCGAAAAGATCTGTGTATGA
Peptide sequence:
MEKLDACIRNHDKEIEKMCNFHHQGFVDAITELLKVRADAEKLKVQVTDTNRRFQDAGKEVIIQTEDIIRCRIQQRNITTVVEKLQLCLPVLEMYSKLKEQMSMKRYYSALKTMEQLENVYFPRVSQYRFCQLMMETLPKLREDIKDISMSDLKDFLESIRKHSDKIGEAAMKQAQQQKSFSVALQKQNNMRFGKNMHVNNDRILEEKSDVIPKHALEEEAENDEEVLTVQDLVDFSPVYRCLHIYSALGDEETFENYYRKQRKKQARLVLQPQSSVHETVDGYRRYFTQIVGFFVVEDHILHVTQGLVTRVYTEELWNMALSKIIAVLRAHSSYCTDPDLVLELKNLIVIFADTLQGYGFPVNRLFDLLFEIRDQYNETLLKKWAGIFRDIFEEDNYSPIPIGSEEEYKVVISRFPFQDPDLEKICV
IRESfinder result
IRESfinder score
0.495609971
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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