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mmu_circAbcc1_761
Basic information of circular RNA
PanCircBase ID:
mmu_circAbcc1_761
mm39_Chr. Position ID:
chr16|14207670|14223009|+
Gene name:
Abcc1
Transcript:
ENSMUST00000130671.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,1511,4146,6544,14183,15207
Genomic length:
15339
Exon/intron sizes in nt:
17,71,26,13,81,26,62,100
Flanking exon/introns:
chr16:14179507-14207670|chr16:14223009-14228563
Splice length:
761
Other database IDs:
circAtlas: mmu-Abcc1_0002
circBase: hsa_circ_0038076, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_16553
Human Ortholog IDs:
Mature spliced Sequence:
GACTGGAATGTCACATGGCACACCAGCAACCCCGACTTTACCAAGTGCTTTCAGAACACGGTCCTCACATGGGTGCCTTGTTTCTACCTCTGGTCCTGTTTCCCCCTCTACTTCTTCTATCTCTCTCGCCATGACCGGGGCTACATCCAGATGACACACCTCAACAAAACCAAAACTGCCTTAGGATTCTTTCTGTGGATCATCTGCTGGGCAGACCTCTTCTACTCTTTCTGGGAAAGAAGTCAGGGAGTGCTCCGAGCCCCAGTGTTACTGGTCAGCCCAACACTGCTGGGCATCACCATGCTGCTCGCCACCTTTTTGATACAGCTTGAACGGAGGAAGGGAGTCCAATCCTCGGGAATTATGCTTACTTTCTGGCTCGTAGCCCTACTCTGTGCCCTTGCCATCTTGAGATCTAAGATCATCTCTGCCTTAAAAAAGGATGCTCATGTGGACGTGTTTCGAGATTCCACGTTCTATCTGTACTTCACCCTTGTGCTTGTTCAGCTCGTGCTGTCCTGCTTCTCAGACTGCTCACCCCTGTTCTCTGAAACTGTCCATGACCGGAATCCATGCCCAGAATCCAGTGCCTCTTTCCTTTCCAGGATTACTTTCTGGTGGATTACAGGGATGATGGTGCACGGCTACCGCCAGCCCCTGGAGAGCAGTGACCTCTGGTCATTGAATAAGGAGGACACATCAGAAGAAGTGGTACCTGTGCTGGTGAATAACTGGAAGAAGGAATGTGATAAGTCAAGGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTACCTGTGCTGGTGAA
59.89
GAGGTAGAAACAAGGCACCCA
59.93
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTGGTACCTGTGCTGGTG
59.89
GAGGTAGAAACAAGGCACCCA
59.93
145
PCR template sequence:
AGAGCAGTGACCTCTGGTCATTGAATAAGGAGGACACATCAGAAGAAGTGGTACCTGTGCTGGTGAATAACTGGAAGAAGGAATGTGATAAGTCAAGGAAGACTGGAATGTCACATGGCACACCAGCAACCCCGACTTTACCAAGTGCTTTCAGAACACGGTCCTCACATGGGTGCCTTGTTTCTACCTCTGGTCCTGTT
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-124-3p(1), mmu-miR-103-3p(1), mmu-miR-196a-5p(1), mmu-miR-138-5p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAAGTCAAGGAAGACTGGAATGTCA
siRNA sets
ACATTCCAGTCTTCCTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCABCC1_761_ORF_1
0.7003
0.093794522
0.872980909
765
ORF sequence:
ATGACACACCTCAACAAAACCAAAACTGCCTTAGGATTCTTTCTGTGGATCATCTGCTGGGCAGACCTCTTCTACTCTTTCTGGGAAAGAAGTCAGGGAGTGCTCCGAGCCCCAGTGTTACTGGTCAGCCCAACACTGCTGGGCATCACCATGCTGCTCGCCACCTTTTTGATACAGCTTGAACGGAGGAAGGGAGTCCAATCCTCGGGAATTATGCTTACTTTCTGGCTCGTAGCCCTACTCTGTGCCCTTGCCATCTTGAGATCTAAGATCATCTCTGCCTTAAAAAAGGATGCTCATGTGGACGTGTTTCGAGATTCCACGTTCTATCTGTACTTCACCCTTGTGCTTGTTCAGCTCGTGCTGTCCTGCTTCTCAGACTGCTCACCCCTGTTCTCTGAAACTGTCCATGACCGGAATCCATGCCCAGAATCCAGTGCCTCTTTCCTTTCCAGGATTACTTTCTGGTGGATTACAGGGATGATGGTGCACGGCTACCGCCAGCCCCTGGAGAGCAGTGACCTCTGGTCATTGAATAAGGAGGACACATCAGAAGAAGTGGTACCTGTGCTGGTGAATAACTGGAAGAAGGAATGTGATAAGTCAAGGAAGACTGGAATGTCACATGGCACACCAGCAACCCCGACTTTACCAAGTGCTTTCAGAACACGGTCCTCACATGGGTGCCTTGTTTCTACCTCTGGTCCTGTTTCCCCCTCTACTTCTTCTATCTCTCTCGCCATGACCGGGGCTACATCCAGATGA
Peptide sequence:
MTHLNKTKTALGFFLWIICWADLFYSFWERSQGVLRAPVLLVSPTLLGITMLLATFLIQLERRKGVQSSGIMLTFWLVALLCALAILRSKIISALKKDAHVDVFRDSTFYLYFTLVLVQLVLSCFSDCSPLFSETVHDRNPCPESSASFLSRITFWWITGMMVHGYRQPLESSDLWSLNKEDTSEEVVPVLVNNWKKECDKSRKTGMSHGTPATPTLPSAFRTRSSHGCLVSTSGPVSPSTSSISLAMTGATSR
IRESfinder result
IRESfinder score
0.712462818
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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