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mmu_circZfp280c_802
Basic information of circular RNA
PanCircBase ID:
mmu_circZfp280c_802
mm39_Chr. Position ID:
chrX|47652558|47661688|-
Gene name:
Zfp280c
Transcript:
ENSMUST00000076635.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
9,8,7,6,5,4
Exon/intron offsets:
0,3026,3267,5439,8600,9064
Genomic length:
9130
Exon/intron sizes in nt:
221,110,165,106,134,66
Flanking exon/introns:
chrX:47648701-47652558|chrX:47661688-47667256
Splice length:
802
Other database IDs:
circAtlas: mmu-Zfp280c_0003
Human Ortholog IDs:
Mature spliced Sequence:
ATATTTTGAACAGATGTAGCCCTGGTTCATCTTCAAAGGGACTAAAGAACGGTTCATTCAATCCAGCTATTTCTAATATATTCAAGCCTACGAGTCAACACTACAGAAATCCATCATCGAATGCACTGGTTGCTTTGCCAAGCTTTCATCCTGCTCTCAAATCTTCAGAGAGTTCTGATGGTCAGACTGTGTCTAAACTTGACTTTACCAAGACTTCACCCCAAGAGGATTCCGGTGCTTGTTCGGTCTCACAGTCAGACTCGACCCAAGATATACCGTCTTCCAACATACTGCAACCGAGGACAGGTGTCGATCAAACTTTAGGATTAAAACATCCTTCCACTTCCAAAGTAAACAGTGTTAATCCAAAAAAGCCAAAGACGAGTGCGAGCATTTCTGAAACACGCCCTTGCTCTTCATCATCTTCACAGACGGCGCCTTCAGGGGCTTCTTCCCAAACTGTACTATCAAATGTGAATACCTCATCAGTTCAGTCTGCACCTGGATCATCTTCACTAAGATCTTGTCCAAAGTGCAATGTTAAGTTCCGACTTCTGGATCCTTTGAAGTGCCACATGAAGCGTTGCTGCCCAGACATGATAAATAAGTTTCTGGAAACTCTCAAGTCAGAAAATTCAAAGGCTGTAAGCAAAGCTACCACTGACTCAGATAAAGAAAAACTGATCATGCTTGTCAGTGATTTTTATTATGGAAGACATGAAGGAACTATTGAGGAAAGCCAGAAGACTCACACCACTTTTAAATGTTTCAGTTGCACAAAAGTTCTCAAAAATAATATTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAGAAGACTCACACCACT
59.61
TGTTGACTCGTAGGCTTGAA
56.81
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCAGAAGACTCACACCAC
59.61
TGTTGACTCGTAGGCTTGAA
56.81
165
PCR template sequence:
TTTATTATGGAAGACATGAAGGAACTATTGAGGAAAGCCAGAAGACTCACACCACTTTTAAATGTTTCAGTTGCACAAAAGTTCTCAAAAATAATATTAGATATTTTGAACAGATGTAGCCCTGGTTCATCTTCAAAGGGACTAAAGAACGGTTCATTCAATCCAGCTATTTCTAATATATTCAAGCCTACGAGTCAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-32-5p(1), mmu-miR-7b-5p(1), mmu-miR-92a-3p(1), mmu-miR-205-5p(1), mmu-miR-18a-5p(1), mmu-miR-7a-5p(1), mmu-miR-222-3p(1), mmu-miR-25-3p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAATAATATTAGATATTTTGAACAG
siRNA sets
AAATATCTAATATTATTTT, AAAATATCTAATATTATTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCZFP280C_802_ORF_1
0.713
-0.068611173
0.901693845
894
ORF sequence:
ATGGAAGACATGAAGGAACTATTGAGGAAAGCCAGAAGACTCACACCACTTTTAAATGTTTCAGTTGCACAAAAGTTCTCAAAAATAATATTAGATATTTTGAACAGATGTAGCCCTGGTTCATCTTCAAAGGGACTAAAGAACGGTTCATTCAATCCAGCTATTTCTAATATATTCAAGCCTACGAGTCAACACTACAGAAATCCATCATCGAATGCACTGGTTGCTTTGCCAAGCTTTCATCCTGCTCTCAAATCTTCAGAGAGTTCTGATGGTCAGACTGTGTCTAAACTTGACTTTACCAAGACTTCACCCCAAGAGGATTCCGGTGCTTGTTCGGTCTCACAGTCAGACTCGACCCAAGATATACCGTCTTCCAACATACTGCAACCGAGGACAGGTGTCGATCAAACTTTAGGATTAAAACATCCTTCCACTTCCAAAGTAAACAGTGTTAATCCAAAAAAGCCAAAGACGAGTGCGAGCATTTCTGAAACACGCCCTTGCTCTTCATCATCTTCACAGACGGCGCCTTCAGGGGCTTCTTCCCAAACTGTACTATCAAATGTGAATACCTCATCAGTTCAGTCTGCACCTGGATCATCTTCACTAAGATCTTGTCCAAAGTGCAATGTTAAGTTCCGACTTCTGGATCCTTTGAAGTGCCACATGAAGCGTTGCTGCCCAGACATGATAAATAAGTTTCTGGAAACTCTCAAGTCAGAAAATTCAAAGGCTGTAAGCAAAGCTACCACTGACTCAGATAAAGAAAAACTGATCATGCTTGTCAGTGATTTTTATTATGGAAGACATGAAGGAACTATTGAGGAAAGCCAGAAGACTCACACCACTTTTAAATGTTTCAGTTGCACAAAAGTTCTCAAAAATAATATT
Peptide sequence:
MEDMKELLRKARRLTPLLNVSVAQKFSKIILDILNRCSPGSSSKGLKNGSFNPAISNIFKPTSQHYRNPSSNALVALPSFHPALKSSESSDGQTVSKLDFTKTSPQEDSGACSVSQSDSTQDIPSSNILQPRTGVDQTLGLKHPSTSKVNSVNPKKPKTSASISETRPCSSSSSQTAPSGASSQTVLSNVNTSSVQSAPGSSSLRSCPKCNVKFRLLDPLKCHMKRCCPDMINKFLETLKSENSKAVSKATTDSDKEKLIMLVSDFYYGRHEGTIEESQKTHTTFKCFSCTKVLKNNI
IRESfinder result
IRESfinder score
0.772718756
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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