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mmu_circSdccag8_687
Basic information of circular RNA
PanCircBase ID:
mmu_circSdccag8_687
mm39_Chr. Position ID:
chr1|176667850|176695930|+
Gene name:
Sdccag8
Transcript:
ENSMUST00000133305.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,7,8,9,10
Exon/intron offsets:
0,4539,4896,13479,27927
Genomic length:
28080
Exon/intron sizes in nt:
1,41,65,18,91,39,153
Flanking exon/introns:
chr1:176658748-176667850|chr1:176695930-176699618
Splice length:
687
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220618, circAtlas: mmu-Sdccag8_0018
circBase: hsa_circ_0112755, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_30922
Human Ortholog IDs:
Mature spliced Sequence:
GGAAACATGCAGAATTCTTGGATTATGACACGAGAAGATTCTAGGGTGGATGAAGCTGCAAAGAGACCATTTTCTCATGGTGATGCTGAAACTGGCAAAACTGCATCCACTGGTGATGCCAATAAATGGAAGCTGGAGCTGGAGAGGCTGAAACTCACATACGAGGCGAAGACTGACCTTCTGGAATCTCAGCTGATGCTTCTGAGGAAAGACTTAGCTGAATACCAGAAAACCTGTGAGGATCTTAAGGAAAGATTGAAGCATAAAGAGTCTCTTCTGGCTGCGAGTGCATCCAGCCGTGTGGGTGGCCTCTGTTTGAAATGTGCTCAGCATGAAGCTGTTCTTTCCCAGACACACAGCAACGTGCACATCCAGACCATCGAGAGGCTGACTAAAGAGAGAGATGACTTAATGTCTGTGCTAGTCTCTGTGCGGAGCAGCTTGGCAGAAGCGCAGAAGAGAGAGACAAGTGCCTATGAGCAGGTGAAGCATGCTGTGCAGATGACAGAGGAAGCCAACTTTGAGAAGACCAAGGCTTTGATCCAGTGTGAGCAGCTGAAGAGTGAGCTGGAGAGGCAGACAGAAAGACTGGAAAAGGAGCTTGCCTCTCAGCAAGAAAAGAGGGCTGTGGAGAAGGAGATGATAAAGAAAGAAGTAGCCAGAGAGAGGGAAGATGCAGAGTCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGCTGTGGAGAAGGAGAT
59.96
TGCCAGTTTCAGCATCACCA
60.18
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGGGCTGTGGAGAAGGA
60.18
TGCCAGTTTCAGCATCACCA
60.18
166
PCR template sequence:
ACTGGAAAAGGAGCTTGCCTCTCAGCAAGAAAAGAGGGCTGTGGAGAAGGAGATGATAAAGAAAGAAGTAGCCAGAGAGAGGGAAGATGCAGAGTCAAAGGGAAACATGCAGAATTCTTGGATTATGACACGAGAAGATTCTAGGGTGGATGAAGCTGCAAAGAGACCATTTTCTCATGGTGATGCTGAAACTGGCAAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-342-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGAGTCAAAGGGAAACATGCAGA
siRNA sets
GTTTCCCTTTGACTCTGCA, TGTTTCCCTTTGACTCTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSDCCAG8_687_ORF_1
1.1361
0.310271087
0.9996572
1368
ORF sequence:
ATGCAGAATTCTTGGATTATGACACGAGAAGATTCTAGGGTGGATGAAGCTGCAAAGAGACCATTTTCTCATGGTGATGCTGAAACTGGCAAAACTGCATCCACTGGTGATGCCAATAAATGGAAGCTGGAGCTGGAGAGGCTGAAACTCACATACGAGGCGAAGACTGACCTTCTGGAATCTCAGCTGATGCTTCTGAGGAAAGACTTAGCTGAATACCAGAAAACCTGTGAGGATCTTAAGGAAAGATTGAAGCATAAAGAGTCTCTTCTGGCTGCGAGTGCATCCAGCCGTGTGGGTGGCCTCTGTTTGAAATGTGCTCAGCATGAAGCTGTTCTTTCCCAGACACACAGCAACGTGCACATCCAGACCATCGAGAGGCTGACTAAAGAGAGAGATGACTTAATGTCTGTGCTAGTCTCTGTGCGGAGCAGCTTGGCAGAAGCGCAGAAGAGAGAGACAAGTGCCTATGAGCAGGTGAAGCATGCTGTGCAGATGACAGAGGAAGCCAACTTTGAGAAGACCAAGGCTTTGATCCAGTGTGAGCAGCTGAAGAGTGAGCTGGAGAGGCAGACAGAAAGACTGGAAAAGGAGCTTGCCTCTCAGCAAGAAAAGAGGGCTGTGGAGAAGGAGATGATAAAGAAAGAAGTAGCCAGAGAGAGGGAAGATGCAGAGTCAAAGGGAAACATGCAGAATTCTTGGATTATGACACGAGAAGATTCTAGGGTGGATGAAGCTGCAAAGAGACCATTTTCTCATGGTGATGCTGAAACTGGCAAAACTGCATCCACTGGTGATGCCAATAAATGGAAGCTGGAGCTGGAGAGGCTGAAACTCACATACGAGGCGAAGACTGACCTTCTGGAATCTCAGCTGATGCTTCTGAGGAAAGACTTAGCTGAATACCAGAAAACCTGTGAGGATCTTAAGGAAAGATTGAAGCATAAAGAGTCTCTTCTGGCTGCGAGTGCATCCAGCCGTGTGGGTGGCCTCTGTTTGAAATGTGCTCAGCATGAAGCTGTTCTTTCCCAGACACACAGCAACGTGCACATCCAGACCATCGAGAGGCTGACTAAAGAGAGAGATGACTTAATGTCTGTGCTAGTCTCTGTGCGGAGCAGCTTGGCAGAAGCGCAGAAGAGAGAGACAAGTGCCTATGAGCAGGTGAAGCATGCTGTGCAGATGACAGAGGAAGCCAACTTTGAGAAGACCAAGGCTTTGATCCAGTGTGAGCAGCTGAAGAGTGAGCTGGAGAGGCAGACAGAAAGACTGGAAAAGGAGCTTGCCTCTCAGCAAGAAAAGAGGGCTGTGGAGAAGGAGATGATAAAGAAAGAAGTAGCCAGAGAGAGGGAAGATGCAGAGTCAAAG
Peptide sequence:
MQNSWIMTREDSRVDEAAKRPFSHGDAETGKTASTGDANKWKLELERLKLTYEAKTDLLESQLMLLRKDLAEYQKTCEDLKERLKHKESLLAASASSRVGGLCLKCAQHEAVLSQTHSNVHIQTIERLTKERDDLMSVLVSVRSSLAEAQKRETSAYEQVKHAVQMTEEANFEKTKALIQCEQLKSELERQTERLEKELASQQEKRAVEKEMIKKEVAREREDAESKGNMQNSWIMTREDSRVDEAAKRPFSHGDAETGKTASTGDANKWKLELERLKLTYEAKTDLLESQLMLLRKDLAEYQKTCEDLKERLKHKESLLAASASSRVGGLCLKCAQHEAVLSQTHSNVHIQTIERLTKERDDLMSVLVSVRSSLAEAQKRETSAYEQVKHAVQMTEEANFEKTKALIQCEQLKSELERQTERLEKELASQQEKRAVEKEMIKKEVAREREDAESK
IRESfinder result
IRESfinder score
0.301839401
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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