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mmu_circAbcc4_808
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc4_808
mm39_Chr. Position ID:
chr14|118790695|118841665|-
Gene name:
Abcc4
Transcript:
ENSMUST00000036554.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
20,19,18,17,16,15,14
Exon/intron offsets:
0,41478,43396,43855,44210,46030,50873
Genomic length:
50970
Exon/intron sizes in nt:
80,147,95,38,141,210,97
Flanking exon/introns:
chr14:118771554-118790695|chr14:118841665-118848848
Splice length:
808
Other database IDs:
circAtlas: mmu-Abcc4_0008
circBase: hsa_circ_0101017, circAtlas: hsa-ABCC4_0007, CIRCpedia: HSA_CIRCpedia_11213
Human Ortholog IDs:
Mature spliced Sequence:
GTGTATCTGTCAGGCGTTGCACGAGAAGATCACCATTTTAGTGACTCACCAGTTACAGTACCTCAAAGCTGCAAGCCACATCCTCATACTCAAAGATGGTGAGATGGTGCAGAAGGGGACTTACACGGAGTTTCTGAAATCTGGTGTAGATTTTGGCTCCCTGTTAAAGAAAGAAAACGAGGAAGCAGAGCCCTCCACAGCCCCAGGAACCCCGACACTCAGGAAACGAACCTTCTCCGAGGCCTCAATTTGGTCTCAGCAGTCATCCAGACCCTCGTTGAAAGACGGGGCCCCAGAGGGCCAAGACGCAGAGAACACGCAGGCAGTGCAACCCGAGGAGAGCCGTTCGGAAGGGAGAATCGGCTTCAAGGCCTACAAGAATTACTTCTCGGCGGGCGCATCCTGGTTCTTCATCATTTTCCTTGTGCTGCTTAACATGGTGGGCCAGGTTTTCTATGTTCTTCAGGACTGGTGGCTTTCCCACTGGGCGAACAAGCAAGGTGCACTGAACAACACCAGAAATGCGAATGGAAATATAACGGAGACCCTAGACCTCAGCTGGTACTTAGGAATTTACGCAGGTCTAACTGCGGTCACCGTCCTTTTTGGCATAGCGAGATCCCTACTGGTGTTCTATATCCTTGTGAACGCTTCCCAGACTTTGCACAACAGGATGTTTGAGTCCATACTGAAGGCTCCCGTGTTGTTCTTCGACAGAAATCCAATCGGGAGGATTTTAAATCGTTTCTCCAAAGACATCGGACACATGGATGATTTGCTTCCCCTGACGTTCCTGGACTTCATCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCAAAGACATCGGACACA
59.03
TGGCTTGCAGCTTTGAGGTA
59.89
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAAGACATCGGACACATGG
59.26
GGATGTGGCTTGCAGCTTTG
60.39
142
PCR template sequence:
CTTCGACAGAAATCCAATCGGGAGGATTTTAAATCGTTTCTCCAAAGACATCGGACACATGGATGATTTGCTTCCCCTGACGTTCCTGGACTTCATCCAGGTGTATCTGTCAGGCGTTGCACGAGAAGATCACCATTTTAGTGACTCACCAGTTACAGTACCTCAAAGCTGCAAGCCACATCCTCATACTCAAAGATGGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-375-3p(1), mmu-miR-15b-5p(1), mmu-miR-328-3p(1), mmu-miR-326-3p(1), mmu-miR-22-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GGACTTCATCCAGGTGTATCTGTCAG
siRNA sets
AGATACACCTGGATGAAGT,GATACACCTGGATGAAGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC4_808_ORF_1
0.9315
0.187593021
0.954432941
807
ORF sequence:
ATGGTGCAGAAGGGGACTTACACGGAGTTTCTGAAATCTGGTGTAGATTTTGGCTCCCTGTTAAAGAAAGAAAACGAGGAAGCAGAGCCCTCCACAGCCCCAGGAACCCCGACACTCAGGAAACGAACCTTCTCCGAGGCCTCAATTTGGTCTCAGCAGTCATCCAGACCCTCGTTGAAAGACGGGGCCCCAGAGGGCCAAGACGCAGAGAACACGCAGGCAGTGCAACCCGAGGAGAGCCGTTCGGAAGGGAGAATCGGCTTCAAGGCCTACAAGAATTACTTCTCGGCGGGCGCATCCTGGTTCTTCATCATTTTCCTTGTGCTGCTTAACATGGTGGGCCAGGTTTTCTATGTTCTTCAGGACTGGTGGCTTTCCCACTGGGCGAACAAGCAAGGTGCACTGAACAACACCAGAAATGCGAATGGAAATATAACGGAGACCCTAGACCTCAGCTGGTACTTAGGAATTTACGCAGGTCTAACTGCGGTCACCGTCCTTTTTGGCATAGCGAGATCCCTACTGGTGTTCTATATCCTTGTGAACGCTTCCCAGACTTTGCACAACAGGATGTTTGAGTCCATACTGAAGGCTCCCGTGTTGTTCTTCGACAGAAATCCAATCGGGAGGATTTTAAATCGTTTCTCCAAAGACATCGGACACATGGATGATTTGCTTCCCCTGACGTTCCTGGACTTCATCCAGGTGTATCTGTCAGGCGTTGCACGAGAAGATCACCATTTTAGTGACTCACCAGTTACAGTACCTCAAAGCTGCAAGCCACATCCTCATACTCAAAGATGGTGA
Peptide sequence:
MVQKGTYTEFLKSGVDFGSLLKKENEEAEPSTAPGTPTLRKRTFSEASIWSQQSSRPSLKDGAPEGQDAENTQAVQPEESRSEGRIGFKAYKNYFSAGASWFFIIFLVLLNMVGQVFYVLQDWWLSHWANKQGALNNTRNANGNITETLDLSWYLGIYAGLTAVTVLFGIARSLLVFYILVNASQTLHNRMFESILKAPVLFFDRNPIGRILNRFSKDIGHMDDLLPLTFLDFIQVYLSGVAREDHHFSDSPVTVPQSCKPHPHTQRW
IRESfinder result
IRESfinder score
0.588675906
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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