top of page
mmu_circRasgrf1_614
Basic information of circular RNA
PanCircBase ID:
mmu_circRasgrf1_614
mm39_Chr. Position ID:
chr9|89806113|89836163|+
Gene name:
Rasgrf1
Transcript:
ENSMUST00000034912.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,20665,26847,29796
Genomic length:
30050
Exon/intron sizes in nt:
11,01,54,96,254
Flanking exon/introns:
chr9:89792326-89806113|chr9:89836163-89849903
Splice length:
614
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223766, circAtlas: mmu-Rasgrf1_0001
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CAACATTACTTCACAGTGAACTTCTCCAATGACAGCCAGAAGACCTTGGAGTTGAGGACCGAGGATGCCAAGGACTGTGACGAGTGGGTGGCTGCGATCGCTCGCGCCAGCTACAAGATACTGGCTACAGAACATGAGGCGCTTATGCAGAAGTACTTACACCTGCTGCAGGTAGTGGAGACAGAGAAGACTGTGGCTAAGCAGCTGCGCCAGCAGCTTGAGGACGGTGAGGTTGAGATCGAGCGCCTGAAGACGGAGGTAACTATTACAAACCTGATCAAGGACAATGATCGTATCCAATCCAGCAACAAAGCCGGTTCTGCTGATGATGAGGACAGTGACATCAAGAAAATTAAGAAGGTTCAGAGCTTCCTTCGGGGATGGCTGTGCCGGCGAAAGTGGAAGAACATCATCCAGGACTACATCCGGTCTCCCCACGCGGACAGCATGCGCAAGAGGAACCAGGTGGTGTTCAGCATGCTGGAGGCCGAGGCTGAGTACGTCCAGCAGCTACACATCCTTGTCAACAACTTCCTGCGCCCACTGCGCATGGCCGCCAGCTCTAAGAAACCCCCTATAACACACGACGACGTCAGCAGTATCTTTCTGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCAACAACTTCCTGCGC
59.62
CTCGTCACAGTCCTTGGCAT
60.04
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCAACAACTTCCTGCGC
59.62
CGGTCCTCAACTCCAAGGTC
60.04
155
PCR template sequence:
ACATCCTTGTCAACAACTTCCTGCGCCCACTGCGCATGGCCGCCAGCTCTAAGAAACCCCCTATAACACACGACGACGTCAGCAGTATCTTTCTGAACAGCAACATTACTTCACAGTGAACTTCTCCAATGACAGCCAGAAGACCTTGGAGTTGAGGACCGAGGATGCCAAGGACTGTGACGAGTGGGTGGCTGCGATCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-382-5p(1), mmu-miR-511-3p(1), mmu-miR-467b-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTTTCTGAACAGCAACATTACTTCA
siRNA sets
AATGTTGCTGTTCAGAAAG, ATGTTGCTGTTCAGAAAGA, GAAGTAATGTTGCTGTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRASGRF1_614_ORF_1
1.3114
0.543380643
0.948697889
489
ORF sequence:
ATGCAGAAGTACTTACACCTGCTGCAGGTAGTGGAGACAGAGAAGACTGTGGCTAAGCAGCTGCGCCAGCAGCTTGAGGACGGTGAGGTTGAGATCGAGCGCCTGAAGACGGAGGTAACTATTACAAACCTGATCAAGGACAATGATCGTATCCAATCCAGCAACAAAGCCGGTTCTGCTGATGATGAGGACAGTGACATCAAGAAAATTAAGAAGGTTCAGAGCTTCCTTCGGGGATGGCTGTGCCGGCGAAAGTGGAAGAACATCATCCAGGACTACATCCGGTCTCCCCACGCGGACAGCATGCGCAAGAGGAACCAGGTGGTGTTCAGCATGCTGGAGGCCGAGGCTGAGTACGTCCAGCAGCTACACATCCTTGTCAACAACTTCCTGCGCCCACTGCGCATGGCCGCCAGCTCTAAGAAACCCCCTATAACACACGACGACGTCAGCAGTATCTTTCTGAACAGCAACATTACTTCACAGTGA
Peptide sequence:
MQKYLHLLQVVETEKTVAKQLRQQLEDGEVEIERLKTEVTITNLIKDNDRIQSSNKAGSADDEDSDIKKIKKVQSFLRGWLCRRKWKNIIQDYIRSPHADSMRKRNQVVFSMLEAEAEYVQQLHILVNNFLRPLRMAASSKKPPITHDDVSSIFLNSNITSQ
IRESfinder result
IRESfinder score
0.217342602
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page