top of page
mmu_circZc3h11a_1224
Basic information of circular RNA
PanCircBase ID:
mmu_circZc3h11a_1224
mm39_Chr. Position ID:
chr1|133561499|133583136|-
Gene name:
Zc3h11a
Transcript:
ENSMUST00000191896.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,2235,3587,4771,5071,5278,6850,11965,13574,20211,21583
Genomic length:
21637
Exon/intron sizes in nt:
99,60,111,81,117,204,124,120,194,60,54
Flanking exon/introns:
chr1:133555008-133561499|chr1:133583136-133588974
Splice length:
1224
Other database IDs:
circAtlas: mmu-Zbed6_0001
CIRCpedia: HSA_CIRCpedia_354932
Human Ortholog IDs:
Mature spliced Sequence:
ATTTGGGGATATTCCCTGCCCAAAAAATTCCTGGAAAATTGACTAGTATTAAGTGCGTAATAGCTTGGAACTGAGTGAAGACACAGATGTTCCTGTTGAGAGCAACCAGCTAATGGTTACATTTTAAAGACGATTTCTGTGGCTGAGTGGTCATTGGAAGAGTAAGTCCTTTTCAAGAGTCCTCGGAGCTGGTCTCACCTCGGAAGCAGTGGCTTGTTCCAGGAAGCCGGTTTTGGCCTGAGAATTTACCCAGTATGCCTAATCAGGGAGAAGACTGCTATTTTTATTTCTATTCTACATGCGCCAAAGGTGACAGCTGCCCATTCCGTCACTGTGAAGCTGCACTAGGAAATGAAACTGTTTGCACACTATGGCAAGAAGGTCGTTGTTTTCGACAGGTGTGCAGATTTCGTCACATGGAAATTGACAAAAAACGAAGTGAAATTCCTTGTTATTGGGAAAATCAGCCAGTGGGATGTCAAAAACTAAACTGCGCTTTCCATCACACCAGAAGCCGCTATGTTGATGGACTCTTCCTACCTCCAAGCAAAACTGTGTTACCCACTGTGCCTGAGTCACAAGAAGAAGAAGTAAAGACTAGCCAGCTCACAGTTCAACAGAGCAAATTGTCTGTTCAGTCTAACCCCTCCCCTCAGCTGCGGAGTGTAATGAAAGTAGAGAGCTCAGAAAACGTTCCCAGCCCCACACATCCGCCTGTTGTAATCAACGCTGCAGATGATGATGAAGATGACGATGATCAGTTTTCTGAGGAGGGTGATGAAAGCAAGACACCTGCCCTGCAGCCATCTCCTGACGTCCATAATGGATTACGAGTGGCTTCTGCCCGCAAACCTGGAGTCAGTTTAAAGCAAGGTGAATGTTTGAATTTTGGAATAAAGACTCTTGAGGAAATTAAATCAAAGAAAATGAAGGAAAAATCCAAGAAGCAAGGTGAAGGCTCCTCGGGAGTTTCCAGTGTTTTACAGCAGCCTCAGCCCAATCCAGGCCCTGAGAAGGAGAATGTTCGGACTGTGGTGAGGATGGTGACTCTATCCAGCAAACCAGAAGAGCCCTTGGTTAGACTGAGTCTTTCTGAGAGACTGGGGAAACGAAAACTTTCAGTGGGTGGTGATAGTGACCCTCCATTAAAGCGAAGCCTTGCACAGAGGCTGGGAAAAAAAGTGGAATCGCCAGAAACTAACATTGATAAAGCACCAAAGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCACAGAGGCTGGGAAAAA
60.11
TGTCTTCACTCAGTTCCAAGCT
59.56
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCACAGAGGCTGGGAAAA
60.11
TGTCTTCACTCAGTTCCAAGCT
59.56
149
PCR template sequence:
GGTGGTGATAGTGACCCTCCATTAAAGCGAAGCCTTGCACAGAGGCTGGGAAAAAAAGTGGAATCGCCAGAAACTAACATTGATAAAGCACCAAAGAAAGATTTGGGGATATTCCCTGCCCAAAAAATTCCTGGAAAATTGACTAGTATTAAGTGCGTAATAGCTTGGAACTGAGTGAAGACACAGATGTTCCTGTTGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), 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-670-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACCAAAGAAAGATTTGGGGATATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZC3H11A_1224_ORF_1
0.9691
0.091544665
0.987990732
1044
ORF sequence:
ATGCCTAATCAGGGAGAAGACTGCTATTTTTATTTCTATTCTACATGCGCCAAAGGTGACAGCTGCCCATTCCGTCACTGTGAAGCTGCACTAGGAAATGAAACTGTTTGCACACTATGGCAAGAAGGTCGTTGTTTTCGACAGGTGTGCAGATTTCGTCACATGGAAATTGACAAAAAACGAAGTGAAATTCCTTGTTATTGGGAAAATCAGCCAGTGGGATGTCAAAAACTAAACTGCGCTTTCCATCACACCAGAAGCCGCTATGTTGATGGACTCTTCCTACCTCCAAGCAAAACTGTGTTACCCACTGTGCCTGAGTCACAAGAAGAAGAAGTAAAGACTAGCCAGCTCACAGTTCAACAGAGCAAATTGTCTGTTCAGTCTAACCCCTCCCCTCAGCTGCGGAGTGTAATGAAAGTAGAGAGCTCAGAAAACGTTCCCAGCCCCACACATCCGCCTGTTGTAATCAACGCTGCAGATGATGATGAAGATGACGATGATCAGTTTTCTGAGGAGGGTGATGAAAGCAAGACACCTGCCCTGCAGCCATCTCCTGACGTCCATAATGGATTACGAGTGGCTTCTGCCCGCAAACCTGGAGTCAGTTTAAAGCAAGGTGAATGTTTGAATTTTGGAATAAAGACTCTTGAGGAAATTAAATCAAAGAAAATGAAGGAAAAATCCAAGAAGCAAGGTGAAGGCTCCTCGGGAGTTTCCAGTGTTTTACAGCAGCCTCAGCCCAATCCAGGCCCTGAGAAGGAGAATGTTCGGACTGTGGTGAGGATGGTGACTCTATCCAGCAAACCAGAAGAGCCCTTGGTTAGACTGAGTCTTTCTGAGAGACTGGGGAAACGAAAACTTTCAGTGGGTGGTGATAGTGACCCTCCATTAAAGCGAAGCCTTGCACAGAGGCTGGGAAAAAAAGTGGAATCGCCAGAAACTAACATTGATAAAGCACCAAAGAAAGATTTGGGGATATTCCCTGCCCAAAAAATTCCTGGAAAATTGACTAGTATTAAGTGCGTAATAGCTTGGAACTGA
Peptide sequence:
MPNQGEDCYFYFYSTCAKGDSCPFRHCEAALGNETVCTLWQEGRCFRQVCRFRHMEIDKKRSEIPCYWENQPVGCQKLNCAFHHTRSRYVDGLFLPPSKTVLPTVPESQEEEVKTSQLTVQQSKLSVQSNPSPQLRSVMKVESSENVPSPTHPPVVINAADDDEDDDDQFSEEGDESKTPALQPSPDVHNGLRVASARKPGVSLKQGECLNFGIKTLEEIKSKKMKEKSKKQGEGSSGVSSVLQQPQPNPGPEKENVRTVVRMVTLSSKPEEPLVRLSLSERLGKRKLSVGGDSDPPLKRSLAQRLGKKVESPETNIDKAPKKDLGIFPAQKIPGKLTSIKCVIAWN
IRESfinder result
IRESfinder score
0.558217004
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page