top of page
mmu_circFam193a_785
Basic information of circular RNA
PanCircBase ID:
mmu_circFam193a_785
mm39_Chr. Position ID:
chr5|34600644|34615447|+
Gene name:
Fam193a
Transcript:
ENSMUST00000180376.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,12,13,14
Exon/intron offsets:
0,278,1361,14604
Genomic length:
14803
Exon/intron sizes in nt:
1,54,18,02,52,199
Flanking exon/introns:
chr5:34597934-34600644|chr5:34615447-34616341
Splice length:
785
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGTAGTGATGATGAAGACGTCGCACCATTGTCAGCTAAGTTTGCTGACATTTATCCGTTGACCAACTACGATGATACCAATGTGGTAGCCAACATGAATGGAATCCACAGCGAACTGAATGGTGGTGGGGAAAACATGGCCCTGAAAGATGAGTCCCCTCAGGTAAGCAGCACCAGCCGTAGTTCTTCAGAGGCTGATGATGAAGATGCTGATGGTGAGAGTAGTGGGGAGCCCCCAGGAGCTCCCAAACAAGAGGAGGCCATAGGAAATGGTAACCCCAAGACAGAAGAGAGTAATGTGAACACTCCACCTCCATCCTACCCAGCTCAGCAGGCAGAACAAACACCGAACACTTGTGAATGCCATGTTTGTAAACAAGAAGCTTCTGGGCTACCAGCATCAGCAATGACTGCTGGAGCCCTGCCTCCTGGCCATCAGTTCCTGAGCCCAGAGAAACCAACACATCCTGCGCTTCACCTGTACCCCCACATCCACGGACATGTACCCTTGCATACTGTTCCACACCTGCCTCGACCGCTCATCCACCCCACCTTGTATCCAGCACCCCCCTTCACACACAGTAAGGCTTTACCGCCAGCACCTGTTCAGAGTCACACAAATAAGCCTCAGGCATTCAATGCATCTCTTCAAGACCATATTTACCCGAGCTGTTTTGGGAACACTCCAGACTGGAATAGTTCTAAATTTATAAGTCTTTGGGAATCAGAAATGATGAATGATAAGAACTGGAACCCTGGCACTTTCTTGCCAGATACAATTTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAACTGGAACCCTGGCAC
60.18
TCATGTTGGCTACCACATTGG
58.55
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAACTGGAACCCTGGCACTT
60.18
TTCATGTTGGCTACCACATTGG
59.18
140
PCR template sequence:
CCAGACTGGAATAGTTCTAAATTTATAAGTCTTTGGGAATCAGAAATGATGAATGATAAGAACTGGAACCCTGGCACTTTCTTGCCAGATACAATTTCTGTTGTAGTGATGATGAAGACGTCGCACCATTGTCAGCTAAGTTTGCTGACATTTATCCGTTGACCAACTACGATGATACCAATGTGGTAGCCAACATGAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-31-5p(1), mmu-miR-122-5p(1), mmu-miR-138-5p(1), mmu-miR-370-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-300-3p(1), mmu-miR-5101(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATACAATTTCTGTTGTAGTGATGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM193A_785_ORF_1
0.965
0.105232944
0.915203822
753
ORF sequence:
ATGAATGGAATCCACAGCGAACTGAATGGTGGTGGGGAAAACATGGCCCTGAAAGATGAGTCCCCTCAGGTAAGCAGCACCAGCCGTAGTTCTTCAGAGGCTGATGATGAAGATGCTGATGGTGAGAGTAGTGGGGAGCCCCCAGGAGCTCCCAAACAAGAGGAGGCCATAGGAAATGGTAACCCCAAGACAGAAGAGAGTAATGTGAACACTCCACCTCCATCCTACCCAGCTCAGCAGGCAGAACAAACACCGAACACTTGTGAATGCCATGTTTGTAAACAAGAAGCTTCTGGGCTACCAGCATCAGCAATGACTGCTGGAGCCCTGCCTCCTGGCCATCAGTTCCTGAGCCCAGAGAAACCAACACATCCTGCGCTTCACCTGTACCCCCACATCCACGGACATGTACCCTTGCATACTGTTCCACACCTGCCTCGACCGCTCATCCACCCCACCTTGTATCCAGCACCCCCCTTCACACACAGTAAGGCTTTACCGCCAGCACCTGTTCAGAGTCACACAAATAAGCCTCAGGCATTCAATGCATCTCTTCAAGACCATATTTACCCGAGCTGTTTTGGGAACACTCCAGACTGGAATAGTTCTAAATTTATAAGTCTTTGGGAATCAGAAATGATGAATGATAAGAACTGGAACCCTGGCACTTTCTTGCCAGATACAATTTCTGTTGTAGTGATGATGAAGACGTCGCACCATTGTCAGCTAAGTTTGCTGACATTTATCCGTTGA
Peptide sequence:
MNGIHSELNGGGENMALKDESPQVSSTSRSSSEADDEDADGESSGEPPGAPKQEEAIGNGNPKTEESNVNTPPPSYPAQQAEQTPNTCECHVCKQEASGLPASAMTAGALPPGHQFLSPEKPTHPALHLYPHIHGHVPLHTVPHLPRPLIHPTLYPAPPFTHSKALPPAPVQSHTNKPQAFNASLQDHIYPSCFGNTPDWNSSKFISLWESEMMNDKNWNPGTFLPDTISVVVMMKTSHHCQLSLLTFIR
IRESfinder result
IRESfinder score
0.524354827
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page