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mmu_circZdhhc2_698
Basic information of circular RNA
PanCircBase ID:
mmu_circZdhhc2_698
mm39_Chr. Position ID:
chr8|40907538|40921044|+
Gene name:
Zdhhc2
Transcript:
ENSMUST00000049389.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
4,5,6,7,8,9,10
Exon/intron offsets:
0,1533,2165,7590,9660,12931,13413
Genomic length:
13506
Exon/intron sizes in nt:
121,70,33,121,133,127,93
Flanking exon/introns:
chr8:40900186-40907538|chr8:40921044-40925953
Splice length:
698
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215975, circAtlas: mmu-Zdhhc2_0002
circBase: hsa_circ_0136010, circAtlas: hsa-ZDHHC2_0002, CIRCpedia: HSA_CIRCpedia_60434
Human Ortholog IDs:
Mature spliced Sequence:
TTCCATCTCTCTTATGCAGAGAAAGAATTGCTGGAGAGAGAGCCAAGAGGAGAAGCCCATCAGGAAGTTCTGAGGCGAGCAGCCAAAGACCTTCCCATCTACACCAGGACCATGTCCGGCGCAATCCGATATTGTGACAGATGCCAACTTATAAAACCAGACCGCTGTCATCATTGTTCCGTCTGTGATAAATGTATTTTGAAGATGGATCATCATTGCCCATGGGTGAACAATTGTGTTGGATTTTCAAACTACAAATTCTTCCTTCTTTTCTTGGCTTACTCTCTGCTGTACTGCCTTTTCATTGCTGCTACCGATTTACAGTATTTTATCAGATTTTGGACAAATGGTCTGCCTGATACTCAAGCCAAGTTCCATATTATGTTTTTATTCTTTGCTGCAGCTATGTTTTCTGTCAGCTTGTCCTCTCTGTTTGGTTATCATTGCTGGCTAGTCAGCAAAAATAAATCTACTTTAGAGGCATTCAGAAATCCAGTATTTAGACACGGAACAGATAAGAACGGATTCAGCTTGGGTTTCAGTAAAAACATGAGACAAGTGTTTGGTGATGAGAAGAAATACTGGCTGTTACCAGTATTTTCAAGTCAAGGTGATGGCTGTTCCTTTCCAACTTGCCTTGTTAACCAGGATCCTGAACAACCTTCTACTCCTGCGGGACTAAATTCAACAGTGAAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAACCTTCTACTCCTGCGGG
60.11
AGATGGGAAGGTCTTTGGCTG
59.99
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAACCTTCTACTCCTGCGG
59.39
ATGGGAAGGTCTTTGGCTGC
60.61
140
PCR template sequence:
TTTCAAGTCAAGGTGATGGCTGTTCCTTTCCAACTTGCCTTGTTAACCAGGATCCTGAACAACCTTCTACTCCTGCGGGACTAAATTCAACAGTGAAAAATTCCATCTCTCTTATGCAGAGAAAGAATTGCTGGAGAGAGAGCCAAGAGGAGAAGCCCATCAGGAAGTTCTGAGGCGAGCAGCCAAAGACCTTCCCATCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(1), mmu-miR-322-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-680(1), mmu-miR-129-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CAACAGTGAAAAATTCCATCTCTCTT
siRNA sets
ATGGAATTTTTCACTGTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZDHHC2_698_ORF_1
0.4053
-0.119294162
0.438554412
660
ORF sequence:
ATGTCCGGCGCAATCCGATATTGTGACAGATGCCAACTTATAAAACCAGACCGCTGTCATCATTGTTCCGTCTGTGATAAATGTATTTTGAAGATGGATCATCATTGCCCATGGGTGAACAATTGTGTTGGATTTTCAAACTACAAATTCTTCCTTCTTTTCTTGGCTTACTCTCTGCTGTACTGCCTTTTCATTGCTGCTACCGATTTACAGTATTTTATCAGATTTTGGACAAATGGTCTGCCTGATACTCAAGCCAAGTTCCATATTATGTTTTTATTCTTTGCTGCAGCTATGTTTTCTGTCAGCTTGTCCTCTCTGTTTGGTTATCATTGCTGGCTAGTCAGCAAAAATAAATCTACTTTAGAGGCATTCAGAAATCCAGTATTTAGACACGGAACAGATAAGAACGGATTCAGCTTGGGTTTCAGTAAAAACATGAGACAAGTGTTTGGTGATGAGAAGAAATACTGGCTGTTACCAGTATTTTCAAGTCAAGGTGATGGCTGTTCCTTTCCAACTTGCCTTGTTAACCAGGATCCTGAACAACCTTCTACTCCTGCGGGACTAAATTCAACAGTGAAAAATTCCATCTCTCTTATGCAGAGAAAGAATTGCTGGAGAGAGAGCCAAGAGGAGAAGCCCATCAGGAAGTTCTGA
Peptide sequence:
MSGAIRYCDRCQLIKPDRCHHCSVCDKCILKMDHHCPWVNNCVGFSNYKFFLLFLAYSLLYCLFIAATDLQYFIRFWTNGLPDTQAKFHIMFLFFAAAMFSVSLSSLFGYHCWLVSKNKSTLEAFRNPVFRHGTDKNGFSLGFSKNMRQVFGDEKKYWLLPVFSSQGDGCSFPTCLVNQDPEQPSTPAGLNSTVKNSISLMQRKNCWRESQEEKPIRKF
IRESfinder result
IRESfinder score
0.756990841
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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