top of page
mmu_circAbcc4_414
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc4_414
mm39_Chr. Position ID:
chr14|118727910|118738292|-
Gene name:
Abcc4
Transcript:
ENSMUST00000036554.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
30,29,28
Exon/intron offsets:
0,9467,10209
Genomic length:
10382
Exon/intron sizes in nt:
13,51,06,173
Flanking exon/introns:
chr14:118721852-118727910|chr14:118738292-118745004
Splice length:
414
Other database IDs:
circAtlas: mmu-Abcc4_0010
circBase: hsa_circ_0101013, circAtlas: hsa-ABCC4_0010, CIRCpedia: HSA_CIRCpedia_11195
Human Ortholog IDs:
Mature spliced Sequence:
GTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGTTCAGCAACTGGGCAA
60.47
ACTGTCTCTGTCCAACACTGA
58.61
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGGTTCAGCAACTGGGC
60.61
ACTGTCTCTGTCCAACACTGA
58.61
153
PCR template sequence:
GCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AACAGCAAAACAGGTACAACTTAAAG
siRNA sets
TAAGTTGTACCTGTTTTGC,TTAAGTTGTACCTGTTTTG,AAGTTGTACCTGTTTTGCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC4_414_ORF_1
1.0004
0.288452435
0.969849812
789
ORF sequence:
ATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTTTTGGATTCAGGAAGACTGAAAGAATATGATGAGCCGTATGTCTTGCTGCAGAATCCAGAGAGCCTCTTTTACAAGATGGTTCAGCAACTGGGCAAGGGCGAAGCCGCTGCCCTCACCGAAACAGCAAAACAG
Peptide sequence:
MDTELAESGSNFSVGQRQLVCLARAILKNNRILIIDEATANVDPRTDELIQQKIREKFAQCTVLTIAHRLNTIIDSDKIMVLDSGRLKEYDEPYVLLQNPESLFYKMVQQLGKGEAAALTETAKQVQLKEAIEDLPGKMDTELAESGSNFSVGQRQLVCLARAILKNNRILIIDEATANVDPRTDELIQQKIREKFAQCTVLTIAHRLNTIIDSDKIMVLDSGRLKEYDEPYVLLQNPESLFYKMVQQLGKGEAAALTETAKQ
IRESfinder result
IRESfinder score
0.603248925
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page