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mmu_circHsd17b4_465
Basic information of circular RNA
PanCircBase ID:
mmu_circHsd17b4_465
mm39_Chr. Position ID:
chr18|50297681|50305198|+
Gene name:
Hsd17b4
Transcript:
ENSMUST00000025385.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
13,14,15,16
Exon/intron offsets:
0,2269,6105,7413
Genomic length:
7517
Exon/intron sizes in nt:
2,37,52,72,104
Flanking exon/introns:
chr18:50295269-50297681|chr18:50305198-50306730
Splice length:
465
Other database IDs:
circAtlas: mmu-Hsd17b4_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_136835
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTGCTGTTGGCCATAAACTTCCTTCATTTTCTTCTTCGTATACGGAGCTGCAGAGTATTATGTATGCCCTCGGAGTGGGAGCGTCAGTCAAAAATCCAAAGGATTTGAAGTTTGTTTATGAAGGCAGTGCTGACTTCTCCTGTTTGCCCACCTTCGGAGTCATTGTCGCTCAGAAGTCCATGATGAATGGAGGGCTGGCAGAGGTTCCTGGGCTGTCATTCAACTTTGCAAAGGCTCTTCACGGGGAGCAGTACTTGGAGCTGTATAAGCCACTTCCTCGATCAGGAGAATTAAAATGTGAAGCAGTTATTGCTGACATCCTGGATAAAGGCTCTGGCGTAGTGATTGTTATGGACGTCTATTCTTATTCTGGGAAGGAACTTATATGCTATAATCAGTTCTCTGTCTTTGTTGTTGGCTCTGGGGGCTTTGGTGGAAAACGGACATCAGAAAAACTCAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTTGTTGTTGGCTCTGGGG
59.32
TTTGACTGACGCTCCCACTC
59.97
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGTTGTTGGCTCTGGGGG
60.76
TTTGACTGACGCTCCCACTC
59.97
150
PCR template sequence:
TTCTTATTCTGGGAAGGAACTTATATGCTATAATCAGTTCTCTGTCTTTGTTGTTGGCTCTGGGGGCTTTGGTGGAAAACGGACATCAGAAAAACTCAAAGTTGGTGCTGTTGGCCATAAACTTCCTTCATTTTCTTCTTCGTATACGGAGCTGCAGAGTATTATGTATGCCCTCGGAGTGGGAGCGTCAGTCAAAAATC
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-146a-5p(1), mmu-miR-184-3p(1), mmu-miR-136-5p(1), mmu-miR-369-3p(1), mmu-miR-3065-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAAAACTCAAAGTTGGTGCTGTTG
siRNA sets
AACAGCACCAACTTTGAGT, CAACAGCACCAACTTTGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCHSD17B4_465_ORF_1
0.9233
0.136367516
0.963252825
867
ORF sequence:
ATGTATGCCCTCGGAGTGGGAGCGTCAGTCAAAAATCCAAAGGATTTGAAGTTTGTTTATGAAGGCAGTGCTGACTTCTCCTGTTTGCCCACCTTCGGAGTCATTGTCGCTCAGAAGTCCATGATGAATGGAGGGCTGGCAGAGGTTCCTGGGCTGTCATTCAACTTTGCAAAGGCTCTTCACGGGGAGCAGTACTTGGAGCTGTATAAGCCACTTCCTCGATCAGGAGAATTAAAATGTGAAGCAGTTATTGCTGACATCCTGGATAAAGGCTCTGGCGTAGTGATTGTTATGGACGTCTATTCTTATTCTGGGAAGGAACTTATATGCTATAATCAGTTCTCTGTCTTTGTTGTTGGCTCTGGGGGCTTTGGTGGAAAACGGACATCAGAAAAACTCAAAGTTGGTGCTGTTGGCCATAAACTTCCTTCATTTTCTTCTTCGTATACGGAGCTGCAGAGTATTATGTATGCCCTCGGAGTGGGAGCGTCAGTCAAAAATCCAAAGGATTTGAAGTTTGTTTATGAAGGCAGTGCTGACTTCTCCTGTTTGCCCACCTTCGGAGTCATTGTCGCTCAGAAGTCCATGATGAATGGAGGGCTGGCAGAGGTTCCTGGGCTGTCATTCAACTTTGCAAAGGCTCTTCACGGGGAGCAGTACTTGGAGCTGTATAAGCCACTTCCTCGATCAGGAGAATTAAAATGTGAAGCAGTTATTGCTGACATCCTGGATAAAGGCTCTGGCGTAGTGATTGTTATGGACGTCTATTCTTATTCTGGGAAGGAACTTATATGCTATAATCAGTTCTCTGTCTTTGTTGTTGGCTCTGGGGGCTTTGGTGGAAAACGGACATCAGAAAAACTCAAA
Peptide sequence:
MYALGVGASVKNPKDLKFVYEGSADFSCLPTFGVIVAQKSMMNGGLAEVPGLSFNFAKALHGEQYLELYKPLPRSGELKCEAVIADILDKGSGVVIVMDVYSYSGKELICYNQFSVFVVGSGGFGGKRTSEKLKVGAVGHKLPSFSSSYTELQSIMYALGVGASVKNPKDLKFVYEGSADFSCLPTFGVIVAQKSMMNGGLAEVPGLSFNFAKALHGEQYLELYKPLPRSGELKCEAVIADILDKGSGVVIVMDVYSYSGKELICYNQFSVFVVGSGGFGGKRTSEKLK
IRESfinder result
IRESfinder score
0.636380912
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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