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mmu_circRelch_416
Basic information of circular RNA
PanCircBase ID:
mmu_circRelch_416
mm39_Chr. Position ID:
chr1|105670935|105678768|+
Gene name:
Relch
Transcript:
ENSMUST00000186807.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
25,26,27,28
Exon/intron offsets:
0,2858,7111,7762
Genomic length:
7833
Exon/intron sizes in nt:
139,117,89,71
Flanking exon/introns:
chr1:105669085-105670935|chr1:105678768-105681227
Splice length:
416
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGCTAGAAAGAGTGAAGATGCAGTTGGCTTCTTTCCTGGAAGACCCTCAGTACCAAGACCAGCATTCTTTGCATACAGAGGTCATCCGAACATTTGGCAGAGTCGGGCCTAATGCAGAACCCCGGTTCCGAGATGAGTTTGTTATACCACATTTACATAAATTAGCCTTGGTGAACAACTTACAAATTGTAGATTCGAAAAAACTGGACATTGCGACTCATCTTTTTGAAGCCTACAGTGCACTCTCCTGTTGTTTCATTTCAGAGGATTTAATGGTAAATCACTTCTTACCTGGCCTCAGATGTTTACGGACTGACATGGAACATCTGTCTCCAGAACATGAGGTTATTTTAAGTTCCATGATAAAAGAATGTGAACAAAAAGTAGAAAACAAGACTGTCCAAGAGCCTCCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTCTCCAGAACATGAGGT
58.11
GCTGGTCTTGGTACTGAGGG
59.75
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTCTCCAGAACATGAGGTT
58.76
GCTGGTCTTGGTACTGAGGG
59.75
154
PCR template sequence:
ACATGGAACATCTGTCTCCAGAACATGAGGTTATTTTAAGTTCCATGATAAAAGAATGTGAACAAAAAGTAGAAAACAAGACTGTCCAAGAGCCTCCAGGTTGCTAGAAAGAGTGAAGATGCAGTTGGCTTCTTTCCTGGAAGACCCTCAGTACCAAGACCAGCATTCTTTGCATACAGAGGTCATCCGAACATTTGGCA
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-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-382-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGCCTCCAGGTTGCTAGAAAGAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRELCH_416_ORF_1
0.8849
0.016574643
0.348284469
405
ORF sequence:
ATGCAGTTGGCTTCTTTCCTGGAAGACCCTCAGTACCAAGACCAGCATTCTTTGCATACAGAGGTCATCCGAACATTTGGCAGAGTCGGGCCTAATGCAGAACCCCGGTTCCGAGATGAGTTTGTTATACCACATTTACATAAATTAGCCTTGGTGAACAACTTACAAATTGTAGATTCGAAAAAACTGGACATTGCGACTCATCTTTTTGAAGCCTACAGTGCACTCTCCTGTTGTTTCATTTCAGAGGATTTAATGGTAAATCACTTCTTACCTGGCCTCAGATGTTTACGGACTGACATGGAACATCTGTCTCCAGAACATGAGGTTATTTTAAGTTCCATGATAAAAGAATGTGAACAAAAAGTAGAAAACAAGACTGTCCAAGAGCCTCCAGGTTGCTAG
Peptide sequence:
MQLASFLEDPQYQDQHSLHTEVIRTFGRVGPNAEPRFRDEFVIPHLHKLALVNNLQIVDSKKLDIATHLFEAYSALSCCFISEDLMVNHFLPGLRCLRTDMEHLSPEHEVILSSMIKECEQKVENKTVQEPPGC
IRESfinder result
IRESfinder score
0.83120279
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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