top of page
mmu_circAbcc5_474
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc5_474
mm39_Chr. Position ID:
chr16|20195260|20208190|-
Gene name:
Abcc5
Transcript:
ENSMUST00000079158.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
15,14,13,12
Exon/intron offsets:
0,1936,2131,12858
Genomic length:
12930
Exon/intron sizes in nt:
204,73,125,72
Flanking exon/introns:
chr16:20193884-20195260|chr16:20208190-20211200
Splice length:
474
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218457, circAtlas: mmu-Abcc5_0014
CIRCpedia: HSA_CIRCpedia_44697
Human Ortholog IDs:
Mature spliced Sequence:
GGCAAACTGGTTGGAATCTGCGGCAGTGTGGGAAGTGGAAAAACCTCTCTCGTTTCAGCCATTTTAGGCCAGATGACGCTTTTGGAGGGCAGCATTGCCGTCAGTGGGACCTTTGCTTATGTGGCCCAACAGGCCTGGATTCTCAATGCCACTCTGAGAGACAACATTCTCTTTGGGAAGGAATTTGATGAAGAGAGATACAACTCAGTGCTGAATAGCTGCTGCCTGCGGCCTGACTTGGCCATTCTCCCCAACAGCGACCTGACTGAGATTGGAGAGCGAGGAGCCAACCTGAGTGGTGGACAGCGCCAGAGAATCAGCCTTGCTAGAGCCTTGTACAGTGATAGAAGCATCTACATCCTGGATGACCCCCTCAGTGCCTTAGATGCCCATGTGGGCAACCACATCTTCAACAGTGCTATCCGGAAGCGCCTCAAGTCTAAGACGGTTCTGTTTGTTACACACCAGTTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGAAGCGCCTCAAGTCTAA
60.11
CAATGCTGCCCTCCAAAAGC
60.39
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGAAGCGCCTCAAGTCTAA
60.11
GCAATGCTGCCCTCCAAAAG
60.39
149
PCR template sequence:
CAGTGCCTTAGATGCCCATGTGGGCAACCACATCTTCAACAGTGCTATCCGGAAGCGCCTCAAGTCTAAGACGGTTCTGTTTGTTACACACCAGTTACAGGGCAAACTGGTTGGAATCTGCGGCAGTGTGGGAAGTGGAAAAACCTCTCTCGTTTCAGCCATTTTAGGCCAGATGACGCTTTTGGAGGGCAGCATTGCCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-216a-5p(1), mmu-miR-495-3p(1), mmu-miR-149-5p(1), mmu-miR-324-3p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACACCAGTTACAGGGCAAACTGGTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC5_474_ORF_1
1.0838
0.344974533
0.988817503
876
ORF sequence:
ATGACGCTTTTGGAGGGCAGCATTGCCGTCAGTGGGACCTTTGCTTATGTGGCCCAACAGGCCTGGATTCTCAATGCCACTCTGAGAGACAACATTCTCTTTGGGAAGGAATTTGATGAAGAGAGATACAACTCAGTGCTGAATAGCTGCTGCCTGCGGCCTGACTTGGCCATTCTCCCCAACAGCGACCTGACTGAGATTGGAGAGCGAGGAGCCAACCTGAGTGGTGGACAGCGCCAGAGAATCAGCCTTGCTAGAGCCTTGTACAGTGATAGAAGCATCTACATCCTGGATGACCCCCTCAGTGCCTTAGATGCCCATGTGGGCAACCACATCTTCAACAGTGCTATCCGGAAGCGCCTCAAGTCTAAGACGGTTCTGTTTGTTACACACCAGTTACAGGGCAAACTGGTTGGAATCTGCGGCAGTGTGGGAAGTGGAAAAACCTCTCTCGTTTCAGCCATTTTAGGCCAGATGACGCTTTTGGAGGGCAGCATTGCCGTCAGTGGGACCTTTGCTTATGTGGCCCAACAGGCCTGGATTCTCAATGCCACTCTGAGAGACAACATTCTCTTTGGGAAGGAATTTGATGAAGAGAGATACAACTCAGTGCTGAATAGCTGCTGCCTGCGGCCTGACTTGGCCATTCTCCCCAACAGCGACCTGACTGAGATTGGAGAGCGAGGAGCCAACCTGAGTGGTGGACAGCGCCAGAGAATCAGCCTTGCTAGAGCCTTGTACAGTGATAGAAGCATCTACATCCTGGATGACCCCCTCAGTGCCTTAGATGCCCATGTGGGCAACCACATCTTCAACAGTGCTATCCGGAAGCGCCTCAAGTCTAAGACGGTTCTGTTTGTTACACACCAGTTACAG
Peptide sequence:
MTLLEGSIAVSGTFAYVAQQAWILNATLRDNILFGKEFDEERYNSVLNSCCLRPDLAILPNSDLTEIGERGANLSGGQRQRISLARALYSDRSIYILDDPLSALDAHVGNHIFNSAIRKRLKSKTVLFVTHQLQGKLVGICGSVGSGKTSLVSAILGQMTLLEGSIAVSGTFAYVAQQAWILNATLRDNILFGKEFDEERYNSVLNSCCLRPDLAILPNSDLTEIGERGANLSGGQRQRISLARALYSDRSIYILDDPLSALDAHVGNHIFNSAIRKRLKSKTVLFVTHQLQ
IRESfinder result
IRESfinder score
0.387526413
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page