top of page
mmu_circRell1_300
Basic information of circular RNA
PanCircBase ID:
mmu_circRell1_300
mm39_Chr. Position ID:
chr5|64093365|64095376|-
Gene name:
Rell1
Transcript:
ENSMUST00000154169.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,1783
Genomic length:
2011
Exon/intron sizes in nt:
72,228
Flanking exon/introns:
chr5:64087878-64093365|chr5:64095376-64125988
Splice length:
300
Other database IDs:
circAtlas: mmu-Rell1_0004
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_102943
Human Ortholog IDs:
Mature spliced Sequence:
ACAACACTGGTAGCCACACGTTACACTCCCGAGCAGAGACCACTCCATCGTCACCCACCAACAACCCTGGGAATGGACACCCGGAATACATCGCGTACGTGCTCGTCCCTGTGTTCTTCGTCATGGGTCTCCTTGGTGTCCTCATCTGTCACTTACTTAAGAAGAAAGGCTACCGGTGTACAACAGAGGCGGAACAGGAAGTCGAAGAGGAAAAGGTGGAAAAGATAGAGTTGAATGACAGTATAAATGAGAACAGTGACACGGTCGGCCAGATTGTCCAGTACATTATGAAAAATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGAACAGTGACACGGTCG
59.97
ACGTACGCGATGTATTCCGG
60.32
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGAACAGTGACACGGTCG
59.97
CGATGTATTCCGGGTGTCCA
59.54
146
PCR template sequence:
GTCGAAGAGGAAAAGGTGGAAAAGATAGAGTTGAATGACAGTATAAATGAGAACAGTGACACGGTCGGCCAGATTGTCCAGTACATTATGAAAAATGAAGACAACACTGGTAGCCACACGTTACACTCCCGAGCAGAGACCACTCCATCGTCACCCACCAACAACCCTGGGAATGGACACCCGGAATACATCGCGTACGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-122-5p(1), mmu-miR-335-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGAAAAATGAAGACAACACTGGTAG
siRNA sets
AGTGTTGTCTTCATTTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRELL1_300_ORF_1
1.2856
0.362009095
0.886543944
477
ORF sequence:
ATGGGTCTCCTTGGTGTCCTCATCTGTCACTTACTTAAGAAGAAAGGCTACCGGTGTACAACAGAGGCGGAACAGGAAGTCGAAGAGGAAAAGGTGGAAAAGATAGAGTTGAATGACAGTATAAATGAGAACAGTGACACGGTCGGCCAGATTGTCCAGTACATTATGAAAAATGAAGACAACACTGGTAGCCACACGTTACACTCCCGAGCAGAGACCACTCCATCGTCACCCACCAACAACCCTGGGAATGGACACCCGGAATACATCGCGTACGTGCTCGTCCCTGTGTTCTTCGTCATGGGTCTCCTTGGTGTCCTCATCTGTCACTTACTTAAGAAGAAAGGCTACCGGTGTACAACAGAGGCGGAACAGGAAGTCGAAGAGGAAAAGGTGGAAAAGATAGAGTTGAATGACAGTATAAATGAGAACAGTGACACGGTCGGCCAGATTGTCCAGTACATTATGAAAAATGAA
Peptide sequence:
MGLLGVLICHLLKKKGYRCTTEAEQEVEEEKVEKIELNDSINENSDTVGQIVQYIMKNEDNTGSHTLHSRAETTPSSPTNNPGNGHPEYIAYVLVPVFFVMGLLGVLICHLLKKKGYRCTTEAEQEVEEEKVEKIELNDSINENSDTVGQIVQYIMKNE
IRESfinder result
IRESfinder score
0.397207846
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page