top of page

mmu_circZdhhc20_745

Basic information of circular RNA
PanCircBase ID:

mmu_circZdhhc20_745

mm39_Chr. Position ID:

chr14|58080644|58115916|-

Gene name:

Zdhhc20

Transcript:

ENSMUST00000089473.5

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

8

Exon/intron indexes:

9,8,7,6,5,4,3,2

Exon/intron offsets:

0,3733,13422,14440,15352,22333,30705,35245

Genomic length:

35272

Exon/intron sizes in nt:

127,142,121,33,70,121,104,27

Flanking exon/introns:

chr14:58078375-58080644|chr14:58115916-58127519

Splice length:

745

Other database IDs:

circAtlas: mmu-Zdhhc20_0004

circBase: hsa_circ_0100059, circAtlas: hsa-ZDHHC20_0004, CIRCpedia: HSA_CIRCpedia_10355

Human Ortholog IDs:
Mature spliced Sequence:

GTACTATTTCCAGAACAGGAGAGAAAGGAAAGACCGTTGTTTACCTTGTGGCTTTCCATCTGTTCTTTGTTATGTTTGTATGGTCTTATTGGATGACAATATTCACGTCTCCTGCTAGCCCTTCCAAAGAGTTCTACTTGTCAAACTCTGAGAAGGAGCGTTATGAGAAGGAGTTCAGCCAAGAAAGACAGCAAGACATTTTGAGAAGAGCGGCAAGAGACCTGCCTATCTACACCACATCAGCTTCAAAGGCTATCCGATATTGTGAAAAATGTCAGTTGATTAAACCTGACCGAGCCCATCACTGCTCAGCATGTGACAGATGTGTTCTTAAGATGGATCATCACTGTCCATGGGTGAATAACTGTGTGGGATTTACTAATTACAAATTCTTCATGCTGTTTTTGTTGTATTCTCTACTATATTGCCTTTTTGTGGCTGCAACAGTTTTAGAGTATTTTATAAAATTTTGGACGAATGAACCAACAGTTTTAAATTTCCCCAGCGCAAAGTTCCACGTACTGTTCCTTTTTTTTGTGTCTGCAATGTTCTTCGTCAGTGTGCTCTCACTATTTAGCTACCATTGCTGGCTGGTTGGAAAAAATAGAACGACAATAGAATCATTTCGTGCACCTATGTTTTCTTATGGAATAGATGGAAATGGTTTCTCTCTTGGATGCAGTAAAAATTGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTAGTTCCAATATTCTCAAG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

ATGGTTTCTCTCTTGGATGCAGT

59.99

AAAGCCACAAGGTAAACAACGG

59.9

140

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GGAAATGGTTTCTCTCTTGGATGC

60.14

GCCACAAGGTAAACAACGGTC

60

141

PCR template sequence:

ATGGAATAGATGGAAATGGTTTCTCTCTTGGATGCAGTAAAAATTGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTAGTTCCAATATTCTCAAGGTACTATTTCCAGAACAGGAGAGAAAGGAAAGACCGTTGTTTACCTTGTGGCTTTCCATCTGTTCTTTGTTATGTTTGTATGGTCTTATTGGATGACAAT

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

8

Interacting miRNAs (#binding sites)

mmu-miR-101a-3p(1), mmu-miR-217-5p(1), mmu-miR-138-5p(1), mmu-miR-431-5p(1), mmu-miR-182-5p(1), mmu-miR-342-3p(1), mmu-miR-410-3p(1), mmu-miR-3065-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CAATATTCTCAAGGTACTATTTCCAG

siRNA sets

CTGGAAATAGTACCTTGAG,AATAGTACCTTGAGAATAT,AAATAGTACCTTGAGAATA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCZDHHC20_745_ORF_1

0.3851

-0.155936409

0.626200162

792

ORF sequence:

ATGTTTGTATGGTCTTATTGGATGACAATATTCACGTCTCCTGCTAGCCCTTCCAAAGAGTTCTACTTGTCAAACTCTGAGAAGGAGCGTTATGAGAAGGAGTTCAGCCAAGAAAGACAGCAAGACATTTTGAGAAGAGCGGCAAGAGACCTGCCTATCTACACCACATCAGCTTCAAAGGCTATCCGATATTGTGAAAAATGTCAGTTGATTAAACCTGACCGAGCCCATCACTGCTCAGCATGTGACAGATGTGTTCTTAAGATGGATCATCACTGTCCATGGGTGAATAACTGTGTGGGATTTACTAATTACAAATTCTTCATGCTGTTTTTGTTGTATTCTCTACTATATTGCCTTTTTGTGGCTGCAACAGTTTTAGAGTATTTTATAAAATTTTGGACGAATGAACCAACAGTTTTAAATTTCCCCAGCGCAAAGTTCCACGTACTGTTCCTTTTTTTTGTGTCTGCAATGTTCTTCGTCAGTGTGCTCTCACTATTTAGCTACCATTGCTGGCTGGTTGGAAAAAATAGAACGACAATAGAATCATTTCGTGCACCTATGTTTTCTTATGGAATAGATGGAAATGGTTTCTCTCTTGGATGCAGTAAAAATTGGAGACAAGTCTTTGGTGATGAAAAGAAATATTGGCTAGTTCCAATATTCTCAAGGTACTATTTCCAGAACAGGAGAGAAAGGAAAGACCGTTGTTTACCTTGTGGCTTTCCATCTGTTCTTTGTTATGTTTGTATGGTCTTATTGGATGACAATATTCACGTCTCCTGCTAG

Peptide sequence:

MFVWSYWMTIFTSPASPSKEFYLSNSEKERYEKEFSQERQQDILRRAARDLPIYTTSASKAIRYCEKCQLIKPDRAHHCSACDRCVLKMDHHCPWVNNCVGFTNYKFFMLFLLYSLLYCLFVAATVLEYFIKFWTNEPTVLNFPSAKFHVLFLFFVSAMFFVSVLSLFSYHCWLVGKNRTTIESFRAPMFSYGIDGNGFSLGCSKNWRQVFGDEKKYWLVPIFSRYYFQNRRERKDRCLPCGFPSVLCYVCMVLLDDNIHVSC

IRESfinder result

IRESfinder score

0.797046093

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

logo.png

Institute of Life sciences, Bhubaneswar, India

bottom of page