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mmu_circZc3h11a_817
Basic information of circular RNA
PanCircBase ID:
mmu_circZc3h11a_817
mm39_Chr. Position ID:
chr1|133563734|133573584|-
Gene name:
Zc3h11a
Transcript:
ENSMUST00000191896.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
11,10,9,8,7,6,5
Exon/intron offsets:
0,1352,2536,2836,3043,4615,9730
Genomic length:
9850
Exon/intron sizes in nt:
60,11,18,11,17,20,41,20,000
Flanking exon/introns:
chr1:133561598-133563734|chr1:133573584-133575073
Splice length:
817
Other database IDs:
circAtlas: mmu-Zbed6_0019
Human Ortholog IDs:
Mature spliced Sequence:
GGTGACAGCTGCCCATTCCGTCACTGTGAAGCTGCACTAGGAAATGAAACTGTTTGCACACTATGGCAAGAAGGTCGTTGTTTTCGACAGGTGTGCAGATTTCGTCACATGGAAATTGACAAAAAACGAAGTGAAATTCCTTGTTATTGGGAAAATCAGCCAGTGGGATGTCAAAAACTAAACTGCGCTTTCCATCACACCAGAAGCCGCTATGTTGATGGACTCTTCCTACCTCCAAGCAAAACTGTGTTACCCACTGTGCCTGAGTCACAAGAAGAAGAAGTAAAGACTAGCCAGCTCACAGTTCAACAGAGCAAATTGTCTGTTCAGTCTAACCCCTCCCCTCAGCTGCGGAGTGTAATGAAAGTAGAGAGCTCAGAAAACGTTCCCAGCCCCACACATCCGCCTGTTGTAATCAACGCTGCAGATGATGATGAAGATGACGATGATCAGTTTTCTGAGGAGGGTGATGAAAGCAAGACACCTGCCCTGCAGCCATCTCCTGACGTCCATAATGGATTACGAGTGGCTTCTGCCCGCAAACCTGGAGTCAGTTTAAAGCAAGGTGAATGTTTGAATTTTGGAATAAAGACTCTTGAGGAAATTAAATCAAAGAAAATGAAGGAAAAATCCAAGAAGCAAGGTGAAGGCTCCTCGGGAGTTTCCAGTGTTTTACAGCAGCCTCAGCCCAATCCAGGCCCTGAGAAGGAGAATGTTCGGACTGTGGTGAGGATGGTGACTCTATCCAGCAAACCAGAAGAGCCCTTGGTTAGACTGAGTCTTTCTGAGAGACTGGGGAAACGAAAACTTTCAGTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGACTGTGGTGAGGATGGTG
60.04
CCTAGTGCAGCTTCACAGTGA
60
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGACTGTGGTGAGGATGGTG
60.04
TCCTAGTGCAGCTTCACAGTG
60
141
PCR template sequence:
CGGACTGTGGTGAGGATGGTGACTCTATCCAGCAAACCAGAAGAGCCCTTGGTTAGACTGAGTCTTTCTGAGAGACTGGGGAAACGAAAACTTTCAGTGGGGTGACAGCTGCCCATTCCGTCACTGTGAAGCTGCACTAGGAAATGAAACTGTTTGCACACTATGGCAAGAAGGTCGTTGTTTTCGACAGGTGTGCAGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-181a-5p(1), mmu-let-7e-5p(1), mmu-miR-181b-5p(1), mmu-let-7d-5p(1), mmu-miR-758-3p(1), mmu-miR-98-5p(1), mmu-miR-384-3p(1), mmu-miR-335-3p(1), mmu-miR-452-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAACTTTCAGTGGGGTGACAGCTGCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZC3H11A_817_ORF_1
1.0231
0.152727971
0.916689825
714
ORF sequence:
ATGGAAATTGACAAAAAACGAAGTGAAATTCCTTGTTATTGGGAAAATCAGCCAGTGGGATGTCAAAAACTAAACTGCGCTTTCCATCACACCAGAAGCCGCTATGTTGATGGACTCTTCCTACCTCCAAGCAAAACTGTGTTACCCACTGTGCCTGAGTCACAAGAAGAAGAAGTAAAGACTAGCCAGCTCACAGTTCAACAGAGCAAATTGTCTGTTCAGTCTAACCCCTCCCCTCAGCTGCGGAGTGTAATGAAAGTAGAGAGCTCAGAAAACGTTCCCAGCCCCACACATCCGCCTGTTGTAATCAACGCTGCAGATGATGATGAAGATGACGATGATCAGTTTTCTGAGGAGGGTGATGAAAGCAAGACACCTGCCCTGCAGCCATCTCCTGACGTCCATAATGGATTACGAGTGGCTTCTGCCCGCAAACCTGGAGTCAGTTTAAAGCAAGGTGAATGTTTGAATTTTGGAATAAAGACTCTTGAGGAAATTAAATCAAAGAAAATGAAGGAAAAATCCAAGAAGCAAGGTGAAGGCTCCTCGGGAGTTTCCAGTGTTTTACAGCAGCCTCAGCCCAATCCAGGCCCTGAGAAGGAGAATGTTCGGACTGTGGTGAGGATGGTGACTCTATCCAGCAAACCAGAAGAGCCCTTGGTTAGACTGAGTCTTTCTGAGAGACTGGGGAAACGAAAACTTTCAGTGGGGTGA
Peptide sequence:
MEIDKKRSEIPCYWENQPVGCQKLNCAFHHTRSRYVDGLFLPPSKTVLPTVPESQEEEVKTSQLTVQQSKLSVQSNPSPQLRSVMKVESSENVPSPTHPPVVINAADDDEDDDDQFSEEGDESKTPALQPSPDVHNGLRVASARKPGVSLKQGECLNFGIKTLEEIKSKKMKEKSKKQGEGSSGVSSVLQQPQPNPGPEKENVRTVVRMVTLSSKPEEPLVRLSLSERLGKRKLSVG
IRESfinder result
IRESfinder score
0.491472399
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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