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mmu_circAbcc4_279
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc4_279
mm39_Chr. Position ID:
chr14|118737377|118738292|-
Gene name:
Abcc4
Transcript:
ENSMUST00000036554.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
29,28
Exon/intron offsets:
0,742
Genomic length:
915
Exon/intron sizes in nt:
1,06,173
Flanking exon/introns:
chr14:118728045-118737377|chr14:118738292-118745004
Splice length:
279
Other database IDs:
CIRCpedia: MMU_CIRCpedia_38478, circAtlas: mmu-Abcc4_0016
circBase: hsa_circ_0030571, circAtlas: hsa-ABCC4_0035, CIRCpedia: HSA_CIRCpedia_11202
Human Ortholog IDs:
Mature spliced Sequence:
GTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCACAGTGCTCACCATTG
60.04
ACTGTCTCTGTCCAACACTGA
58.61
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCTCACCATTGCTCACA
59.89
ACTGTCTCTGTCCAACACTGA
58.61
149
PCR template sequence:
TGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGT
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
TGACAAGATAATGGTACAACTTAAAG
siRNA sets
TTAAGTTGTACCATTATCT, TTTAAGTTGTACCATTATC, AAGTTGTACCATTATCTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC4_279_ORF_1
1.0416
0.26145537
0.816841398
519
ORF sequence:
ATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATGGTACAACTTAAAGAGGCCATTGAAGATCTTCCTGGAAAAATGGATACTGAATTAGCAGAATCTGGATCCAATTTCAGTGTTGGACAGAGACAGTTAGTGTGCCTTGCAAGGGCCATTCTAAAGAATAACCGAATACTGATCATTGATGAAGCAACTGCAAATGTGGACCCAAGAACGGATGAGTTAATACAACAGAAGATCCGGGAGAAGTTTGCCCAGTGCACAGTGCTCACCATTGCTCACAGACTGAACACCATCATTGACAGTGACAAGATAATG
Peptide sequence:
MDTELAESGSNFSVGQRQLVCLARAILKNNRILIIDEATANVDPRTDELIQQKIREKFAQCTVLTIAHRLNTIIDSDKIMVQLKEAIEDLPGKMDTELAESGSNFSVGQRQLVCLARAILKNNRILIIDEATANVDPRTDELIQQKIREKFAQCTVLTIAHRLNTIIDSDKIM
IRESfinder result
IRESfinder score
0.675125218
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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