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mmu_circZfp410_698
Basic information of circular RNA
PanCircBase ID:
mmu_circZfp410_698
mm39_Chr. Position ID:
chr12|84369657|84376726|+
Gene name:
Zfp410
Transcript:
ENSMUST00000045931.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,2687,4395,6918
Genomic length:
7069
Exon/intron sizes in nt:
136,219,192,151
Flanking exon/introns:
chr12:84368765-84369657|chr12:84376726-84378408
Splice length:
698
Other database IDs:
circAtlas: mmu-Zfp410_0003
circBase: hsa_circ_0102580, circAtlas: hsa-ZNF410_0002, CIRCpedia: HSA_CIRCpedia_13022
Human Ortholog IDs:
Mature spliced Sequence:
CTCCTGGTTCAGTTTGTTCAGAATACCTCCATCCCCCTGGGACAAGGGCTAGTAGAATCAGAAGCTAAAGACATTACTTGCTTATCCCTCCTTCCAGTGACCGAGGCCTCAGAATGCAGCCGACTAATGTTACCAGATGAAACTCCAAATCATGCTAATTCCTCCAAGGAGGTCCCTTCTTCAGCTGTTTTGAGGAGCCTTCAGGTGAATGTGGGCCCAGACGGAGAAGAGACAAGGGCTCAGACTGTACAGAAGTCCCCAGAGTTCCTGACCACACCAGAGTCGCCTAGCTTGTTGCAAGATCTACAGCCAAGTGATAGCACTTCCTTCATTCTTCTGAACCTAACGAGAGCAGGGCTGGGCTCTTCAGCTGAGCACTTTGTGTTTGTTCAGGATGAGACAGAGGACTCAGGGGCTGACTTCCTCTCTGCTGAGAGCACAGACAGCAGTATCCCATGGTTCCTCCGGGTTCAGGAACTGGCCCATGACAGTCTGATTGCGGCTACTCGTGCACAGCTGGCCAAGAATGCAAAAACTGGCAGCAATGGAGAAAATGTCCACCTTGGCTCTGGTGATGGGCAACCAAAAGACTCTGGTCCCCTTCCTCAAGCGGAGAAGAAGCTCAAGTGCACAGTTGAAGGCTGTGACCGGACATTTGTGTGGCCAGCTCACTTCAAGTACCACCTTAAAACTCACCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATTTGTGTGGCCAGCTCAC
60.04
CACTGGAAGGAGGGATAAGCA
59.16
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCACAGTTGAAGGCTGT
60.11
CACTGGAAGGAGGGATAAGCA
59.16
172
PCR template sequence:
CCCTTCCTCAAGCGGAGAAGAAGCTCAAGTGCACAGTTGAAGGCTGTGACCGGACATTTGTGTGGCCAGCTCACTTCAAGTACCACCTTAAAACTCACCGCTCCTGGTTCAGTTTGTTCAGAATACCTCCATCCCCCTGGGACAAGGGCTAGTAGAATCAGAAGCTAAAGACATTACTTGCTTATCCCTCCTTCCAGTGA
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-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-326-3p(1), mmu-miR-125b-5p(1), mmu-miR-495-3p(1), mmu-miR-125a-5p(1), mmu-miR-129-5p(1), mmu-miR-1199-5p(1), mmu-miR-490-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTAAAACTCACCGCTCCTGGTTCAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZFP410_698_ORF_1
0.9188
0.179219645
0.841393184
624
ORF sequence:
ATGTTACCAGATGAAACTCCAAATCATGCTAATTCCTCCAAGGAGGTCCCTTCTTCAGCTGTTTTGAGGAGCCTTCAGGTGAATGTGGGCCCAGACGGAGAAGAGACAAGGGCTCAGACTGTACAGAAGTCCCCAGAGTTCCTGACCACACCAGAGTCGCCTAGCTTGTTGCAAGATCTACAGCCAAGTGATAGCACTTCCTTCATTCTTCTGAACCTAACGAGAGCAGGGCTGGGCTCTTCAGCTGAGCACTTTGTGTTTGTTCAGGATGAGACAGAGGACTCAGGGGCTGACTTCCTCTCTGCTGAGAGCACAGACAGCAGTATCCCATGGTTCCTCCGGGTTCAGGAACTGGCCCATGACAGTCTGATTGCGGCTACTCGTGCACAGCTGGCCAAGAATGCAAAAACTGGCAGCAATGGAGAAAATGTCCACCTTGGCTCTGGTGATGGGCAACCAAAAGACTCTGGTCCCCTTCCTCAAGCGGAGAAGAAGCTCAAGTGCACAGTTGAAGGCTGTGACCGGACATTTGTGTGGCCAGCTCACTTCAAGTACCACCTTAAAACTCACCGCTCCTGGTTCAGTTTGTTCAGAATACCTCCATCCCCCTGGGACAAGGGCTAG
Peptide sequence:
MLPDETPNHANSSKEVPSSAVLRSLQVNVGPDGEETRAQTVQKSPEFLTTPESPSLLQDLQPSDSTSFILLNLTRAGLGSSAEHFVFVQDETEDSGADFLSAESTDSSIPWFLRVQELAHDSLIAATRAQLAKNAKTGSNGENVHLGSGDGQPKDSGPLPQAEKKLKCTVEGCDRTFVWPAHFKYHLKTHRSWFSLFRIPPSPWDKG
IRESfinder result
IRESfinder score
0.623655377
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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