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mmu_circHelq_796
Basic information of circular RNA
PanCircBase ID:
mmu_circHelq_796
mm39_Chr. Position ID:
chr5|100933147|100940708|-
Gene name:
Helq
Transcript:
ENSMUST00000044684.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,1702,4857,6055,6495,7382
Genomic length:
7561
Exon/intron sizes in nt:
14,69,99,87,32,01,179
Flanking exon/introns:
chr5:100931063-100933147|chr5:100940708-100944219
Splice length:
796
Other database IDs:
circAtlas: mmu-Helq_0004
circBase: hsa_circ_0127129, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_137521
Human Ortholog IDs:
Mature spliced Sequence:
ACTGGCAACATACTTGCTTAACGCTAAGATCTGTGCAAGAAAGAAAAAATTTAATATATTCCTTGCCAACGAGTGGCGGGAAAACCCTTGTGGCTGAGATCTTAATGCTGCAAGAGCTGCTCTGCCGACAGAAAGATGTCTTAATGATCCTTCCGTATGTGGCCATTGTCCAAGAGAAGATTTCCAGTTTATCGAGTTTTGGTATAGAACTTGGTTTCTTTGTTGAAGAATATGCTGGAAGCAAAGGAAGATTTCCTCCAATTAAAAGGAGGGAGAAGAAATCACTGTATATCGCCACTATCGAGAAAGCGCATAGCCTGGTGAATGCCTTGATCGAAACCAGCAGGCTCAGCACTCTGGGTCTGGTTGTCGTCGATGAGTTGCACATGATTGGTGAAGGGAGCCGTGGCGCCATACTGGAGATGACCCTGGCAAAAGTCCTCTACACCAGCAAAACAACTCAGATTATCGGCATGAGTGCAACATTGAACAACGTAGAAGACCTGCAGGCGTTCCTTAAAGCCGAGTACTACACCAGTCAGTTCAGACCAGTGGAATTAAAAGAATTCCTGAAAGTAAATGACACAATCTATGAGGTAGACAGCCAGGCTGCGGACGGCATGACCTTTTCACGGCTCCTGAGTTATAAGTACTCTGAGGCCCTGAAGAAGATGGATCCCGACCGCTTGGTAGCACTGGTGACAGAAGTTATTCCTAACTACTCCTGCCTGGTGTTTTGTCCCAGTAAGAAGAACTGTGAAAATGTAGCAGAAATGTTGTGCAAGTTTTTAAGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCTGCCTGGTGTTTTGT
59.74
CTCAGCCACAAGGGTTTTCC
59.04
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGCCTGGTGTTTTGTCC
60.47
CTCAGCCACAAGGGTTTTCC
59.04
172
PCR template sequence:
TGGTGACAGAAGTTATTCCTAACTACTCCTGCCTGGTGTTTTGTCCCAGTAAGAAGAACTGTGAAAATGTAGCAGAAATGTTGTGCAAGTTTTTAAGCAAACTGGCAACATACTTGCTTAACGCTAAGATCTGTGCAAGAAAGAAAAAATTTAATATATTCCTTGCCAACGAGTGGCGGGAAAACCCTTGTGGCTGAGAT
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-221-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-138-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-382-3p(1), mmu-miR-370-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-3065-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTTTTAAGCAAACTGGCAACATAC
siRNA sets
TATGTTGCCAGTTTGCTTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHELQ_796_ORF_1
1.11
0.225180605
0.967649446
789
ORF sequence:
ATGCTGCAAGAGCTGCTCTGCCGACAGAAAGATGTCTTAATGATCCTTCCGTATGTGGCCATTGTCCAAGAGAAGATTTCCAGTTTATCGAGTTTTGGTATAGAACTTGGTTTCTTTGTTGAAGAATATGCTGGAAGCAAAGGAAGATTTCCTCCAATTAAAAGGAGGGAGAAGAAATCACTGTATATCGCCACTATCGAGAAAGCGCATAGCCTGGTGAATGCCTTGATCGAAACCAGCAGGCTCAGCACTCTGGGTCTGGTTGTCGTCGATGAGTTGCACATGATTGGTGAAGGGAGCCGTGGCGCCATACTGGAGATGACCCTGGCAAAAGTCCTCTACACCAGCAAAACAACTCAGATTATCGGCATGAGTGCAACATTGAACAACGTAGAAGACCTGCAGGCGTTCCTTAAAGCCGAGTACTACACCAGTCAGTTCAGACCAGTGGAATTAAAAGAATTCCTGAAAGTAAATGACACAATCTATGAGGTAGACAGCCAGGCTGCGGACGGCATGACCTTTTCACGGCTCCTGAGTTATAAGTACTCTGAGGCCCTGAAGAAGATGGATCCCGACCGCTTGGTAGCACTGGTGACAGAAGTTATTCCTAACTACTCCTGCCTGGTGTTTTGTCCCAGTAAGAAGAACTGTGAAAATGTAGCAGAAATGTTGTGCAAGTTTTTAAGCAAACTGGCAACATACTTGCTTAACGCTAAGATCTGTGCAAGAAAGAAAAAATTTAATATATTCCTTGCCAACGAGTGGCGGGAAAACCCTTGTGGCTGA
Peptide sequence:
MLQELLCRQKDVLMILPYVAIVQEKISSLSSFGIELGFFVEEYAGSKGRFPPIKRREKKSLYIATIEKAHSLVNALIETSRLSTLGLVVVDELHMIGEGSRGAILEMTLAKVLYTSKTTQIIGMSATLNNVEDLQAFLKAEYYTSQFRPVELKEFLKVNDTIYEVDSQAADGMTFSRLLSYKYSEALKKMDPDRLVALVTEVIPNYSCLVFCPSKKNCENVAEMLCKFLSKLATYLLNAKICARKKKFNIFLANEWRENPCG
IRESfinder result
IRESfinder score
0.446680186
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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