top of page
mmu_circFam135a_762
Basic information of circular RNA
PanCircBase ID:
mmu_circFam135a_762
mm39_Chr. Position ID:
chr1|24094824|24137800|-
Gene name:
Fam135a
Transcript:
ENSMUST00000187369.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,1460,1622,12155,29667,30776,42887
Genomic length:
42976
Exon/intron sizes in nt:
174,71,140,80,116,92,89
Flanking exon/introns:
chr1:24093211-24094824|chr1:24137800-24139141
Splice length:
762
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGTTGAAGAACAACTGGATTATGTATTTCATTCTGGAATCTCAAAGCAGCCTGCAAACAATAAGTTCTTCCTTAAGTTATCTATGTCAGGGGGCACAATATATTTTTAACAACAAGAATCAGTAACTGGAAATACAAGGTTCATTATTTAATAATGTAAAATGAAGATCTGATCAGCAGAGGTGCTGTTACCAGATTTGCCCTCTGGGTATAAATTAAAAATGACTGAAGTTCAAGCAATGGTAGAATTCTCCGTGGAGCTAAACAAGTTCTACAACGTGGATTTATTCCAAAGAGGTTTTTACCAAATACGCGCATCGATGAAAATACCAGCAAGAATTCCCCACCGAGTAGAAGCCAGTTTGTTACACGCAACAGGCATGACATTAGCCTTTCCAGCTTCCGTTCATGATGCTCTGGTTTGCAGCAAAACATTTCAGATCCTATATAAAAATGAAGAAGTTGTTTTAAATGATGTCATGATCTTCAAAGTTAAAATGCTGTTGGATGAAAGAAAGATTGAAGAAACCCTTGAAGAAATCAGTTTTTTGTTATCGTTGGGTCTACATTTCACAGATGGAGACTATTCGGCAGATGATCTGAATGCCTTGCAACTAATAAGCAGTCGGACATTGAAGCTGCACTATAGCATCTGTAGAGGCCTTCATCACCATGCGAATGTCATGTTTGATTACTTCCACCTGTCTGTGGTGTCCGTTACAGTTCACGCGTCATTGGTTGCACTACACCAGCCGCTAATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTCCGTTACAGTTCACGC
59.49
TTGTGCCCCCTGACATAGAT
58.4
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTCCGTTACAGTTCACGC
59.49
ATTGTGCCCCCTGACATAGA
58.4
152
PCR template sequence:
TTCATCACCATGCGAATGTCATGTTTGATTACTTCCACCTGTCTGTGGTGTCCGTTACAGTTCACGCGTCATTGGTTGCACTACACCAGCCGCTAATAAGGGTTGAAGAACAACTGGATTATGTATTTCATTCTGGAATCTCAAAGCAGCCTGCAAACAATAAGTTCTTCCTTAAGTTATCTATGTCAGGGGGCACAATA
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-203-3p(2), mmu-miR-138-5p(1), mmu-miR-495-3p(1), mmu-miR-191-5p(1), mmu-miR-130b-3p(1), mmu-miR-721(1), mmu-miR-194-5p(1), mmu-miR-690(1), mmu-miR-335-3p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCGCTAATAAGGGTTGAAGAACAA
siRNA sets
TTCTTCAACCCTTATTAGC, TCTTCAACCCTTATTAGCG, GTTCTTCAACCCTTATTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFAM135A_762_ORF_1
0.8174
-0.007400847
0.712775913
651
ORF sequence:
ATGACTGAAGTTCAAGCAATGGTAGAATTCTCCGTGGAGCTAAACAAGTTCTACAACGTGGATTTATTCCAAAGAGGTTTTTACCAAATACGCGCATCGATGAAAATACCAGCAAGAATTCCCCACCGAGTAGAAGCCAGTTTGTTACACGCAACAGGCATGACATTAGCCTTTCCAGCTTCCGTTCATGATGCTCTGGTTTGCAGCAAAACATTTCAGATCCTATATAAAAATGAAGAAGTTGTTTTAAATGATGTCATGATCTTCAAAGTTAAAATGCTGTTGGATGAAAGAAAGATTGAAGAAACCCTTGAAGAAATCAGTTTTTTGTTATCGTTGGGTCTACATTTCACAGATGGAGACTATTCGGCAGATGATCTGAATGCCTTGCAACTAATAAGCAGTCGGACATTGAAGCTGCACTATAGCATCTGTAGAGGCCTTCATCACCATGCGAATGTCATGTTTGATTACTTCCACCTGTCTGTGGTGTCCGTTACAGTTCACGCGTCATTGGTTGCACTACACCAGCCGCTAATAAGGGTTGAAGAACAACTGGATTATGTATTTCATTCTGGAATCTCAAAGCAGCCTGCAAACAATAAGTTCTTCCTTAAGTTATCTATGTCAGGGGGCACAATATATTTTTAA
Peptide sequence:
MTEVQAMVEFSVELNKFYNVDLFQRGFYQIRASMKIPARIPHRVEASLLHATGMTLAFPASVHDALVCSKTFQILYKNEEVVLNDVMIFKVKMLLDERKIEETLEEISFLLSLGLHFTDGDYSADDLNALQLISSRTLKLHYSICRGLHHHANVMFDYFHLSVVSVTVHASLVALHQPLIRVEEQLDYVFHSGISKQPANNKFFLKLSMSGGTIYF
IRESfinder result
IRESfinder score
0.683775156
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page