top of page
mmu_circUhrf1bp1_689
Basic information of circular RNA
PanCircBase ID:
mmu_circUhrf1bp1_689
mm39_Chr. Position ID:
chr17|28098197|28100589|+
Gene name:
Uhrf1bp1
Transcript:
ENSMUST00000114849.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,427,911,2205
Genomic length:
2392
Exon/intron sizes in nt:
1,90,14,11,71,187
Flanking exon/introns:
chr17:28096387-28098197|chr17:28100589-28102994
Splice length:
689
Other database IDs:
CIRCpedia: MMU_CIRCpedia_39062, circAtlas: mmu-Uhrf1bp1_0001
circBase: hsa_circ_0131645, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_54805
Human Ortholog IDs:
Mature spliced Sequence:
TGAGTATGGCTTTGCTGAGAAGGTGGTGGAGGGAATGTTCATTGTGGTCAACTCCATCACCATCAAGATCCACTCCAAGGCCTTCCATGCTTCCTTTGAACTGTGGCAGCTCCAGGGTTATAGTGTCAACCCCAACTGGCAGCAGAGTGACCTGCGTCTGACCCGCATCACTGATCCCCGCCGAGGAGAGGTTTTAACATTTAAGGAAATAACTTGGCAGACCCTCCGAGTTGAGGCAGACGCCATAGAAAATGGTGATCAGGACCCAGTTACCACCCCACTGAGGCTCATTACCAACCAAGGCCGCATCCAGATAGCCCTCAAGAGAAGAACCAAAGACTGCAATGTGGTCGCCTCCAAGTTGACCTTCCTCCTGGACGACCTGCTCTGGGTGCTGACGGACTCACAGCTCAAGGCGATGATGAAGTACGCCGAGTCGCTGAGTGAGGCCATGGAGAAGTCTGCCCAGCAGAGAAAGAGCCTGGCTCCTGAGTCTGTGCAGACCACTCCACCCGCTCCCAGTGCTCAGCAGACTTGGGCCCAGGCATTCGGTGGCAGCCAGGGCAGCAGCAGCAGCAGTCGTCTCAGCCAGTATTTTGAGAAATTTGACGTGAAGGAGTCTTCCTACCACCTCCTCATCTCCCGCCTGGACCTGCACATCTGCGATGACAGCCAGTCCCGAGAGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACCACCTCCTCATCTCCCG
60.11
GGAAGGCCTTGGAGTGGATC
60.11
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACCACCTCCTCATCTCCCG
60.11
GGCCTTGGAGTGGATCTTGA
59.38
146
PCR template sequence:
CAGTATTTTGAGAAATTTGACGTGAAGGAGTCTTCCTACCACCTCCTCATCTCCCGCCTGGACCTGCACATCTGCGATGACAGCCAGTCCCGAGAGCCAGTGAGTATGGCTTTGCTGAGAAGGTGGTGGAGGGAATGTTCATTGTGGTCAACTCCATCACCATCAAGATCCACTCCAAGGCCTTCCATGCTTCCTTTGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-149-5p(1), mmu-miR-22-3p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-3470b(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCCGAGAGCCAGTGAGTATGGCTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUHRF1BP1_689_ORF_1
0.8822
0.318596887
0.972249695
816
ORF sequence:
ATGTTCATTGTGGTCAACTCCATCACCATCAAGATCCACTCCAAGGCCTTCCATGCTTCCTTTGAACTGTGGCAGCTCCAGGGTTATAGTGTCAACCCCAACTGGCAGCAGAGTGACCTGCGTCTGACCCGCATCACTGATCCCCGCCGAGGAGAGGTTTTAACATTTAAGGAAATAACTTGGCAGACCCTCCGAGTTGAGGCAGACGCCATAGAAAATGGTGATCAGGACCCAGTTACCACCCCACTGAGGCTCATTACCAACCAAGGCCGCATCCAGATAGCCCTCAAGAGAAGAACCAAAGACTGCAATGTGGTCGCCTCCAAGTTGACCTTCCTCCTGGACGACCTGCTCTGGGTGCTGACGGACTCACAGCTCAAGGCGATGATGAAGTACGCCGAGTCGCTGAGTGAGGCCATGGAGAAGTCTGCCCAGCAGAGAAAGAGCCTGGCTCCTGAGTCTGTGCAGACCACTCCACCCGCTCCCAGTGCTCAGCAGACTTGGGCCCAGGCATTCGGTGGCAGCCAGGGCAGCAGCAGCAGCAGTCGTCTCAGCCAGTATTTTGAGAAATTTGACGTGAAGGAGTCTTCCTACCACCTCCTCATCTCCCGCCTGGACCTGCACATCTGCGATGACAGCCAGTCCCGAGAGCCAGTGAGTATGGCTTTGCTGAGAAGGTGGTGGAGGGAATGTTCATTGTGGTCAACTCCATCACCATCAAGATCCACTCCAAGGCCTTCCATGCTTCCTTTGAACTGTGGCAGCTCCAGGGTTATAGTGTCAACCCCAACTGGCAGCAGAGTGACCTGCGTCTGA
Peptide sequence:
MFIVVNSITIKIHSKAFHASFELWQLQGYSVNPNWQQSDLRLTRITDPRRGEVLTFKEITWQTLRVEADAIENGDQDPVTTPLRLITNQGRIQIALKRRTKDCNVVASKLTFLLDDLLWVLTDSQLKAMMKYAESLSEAMEKSAQQRKSLAPESVQTTPPAPSAQQTWAQAFGGSQGSSSSSRLSQYFEKFDVKESSYHLLISRLDLHICDDSQSREPVSMALLRRWWRECSLWSTPSPSRSTPRPSMLPLNCGSSRVIVSTPTGSRVTCV
IRESfinder result
IRESfinder score
0.530617936
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page