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mmu_circAtp8b1_812
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b1_812
mm39_Chr. Position ID:
chr18|64683441|64694807|-
Gene name:
Atp8b1
Transcript:
ENSMUST00000025482.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
20,19,18,17,16,15
Exon/intron offsets:
0,1469,2643,4743,6470,11209
Genomic length:
11366
Exon/intron sizes in nt:
76,112,165,113,189,157
Flanking exon/introns:
chr18:64679194-64683441|chr18:64694807-64695240
Splice length:
812
Other database IDs:
circAtlas: mmu-Atp8b1_0023
Human Ortholog IDs:
Mature spliced Sequence:
CTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGATATCTTTGCAAGTGAGACTCTCAGGACCCTGTGCCTGTGCTACAAGGAAATTGAAGAAAAAGAATTTACAGAATGGAATAATAAGTTTATGGCCGCCAGCGTGGCCTCAAGCAACCGAGACGAAGCGTTGGATAAAGTGTACGAGGAGATTGAGAAAGACTTGATTCTCTTGGGAGCTACTGCTATTGAAGACAAGCTACAGGATGGAGTCCCAGAAACCATTTCAAAACTTGCAAAAGCTGACATTAAGATCTGGGTACTCACCGGAGACAAAAAGGAAACTGCAGAAAACATAGGTTTTGCCTGTGAACTCTTGACGGAAGACACTACTATCTGCTACGGAGAGGACATAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGTGAACTCTTGACGGA
59.97
CTGGCTCTTTCCCTGACTGT
59.31
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTGTGAACTCTTGACGG
60.25
CTGGCTCTTTCCCTGACTGT
59.31
148
PCR template sequence:
GGGTACTCACCGGAGACAAAAAGGAAACTGCAGAAAACATAGGTTTTGCCTGTGAACTCTTGACGGAAGACACTACTATCTGCTACGGAGAGGACATAAACTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-101a-3p(1), mmu-miR-101b-3p(1), mmu-miR-203-3p(1), mmu-miR-125b-5p(1), mmu-miR-149-5p(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGAGGACATAAACTAGTGGACTTTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B1_812_ORF_1
1.2395
0.39537955
0.97161707
678
ORF sequence:
ATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGATATCTTTGCAAGTGAGACTCTCAGGACCCTGTGCCTGTGCTACAAGGAAATTGAAGAAAAAGAATTTACAGAATGGAATAATAAGTTTATGGCCGCCAGCGTGGCCTCAAGCAACCGAGACGAAGCGTTGGATAAAGTGTACGAGGAGATTGAGAAAGACTTGATTCTCTTGGGAGCTACTGCTATTGAAGACAAGCTACAGGATGGAGTCCCAGAAACCATTTCAAAACTTGCAAAAGCTGACATTAAGATCTGGGTACTCACCGGAGACAAAAAGGAAACTGCAGAAAACATAGGTTTTGCCTGTGAACTCTTGACGGAAGACACTACTATCTGCTACGGAGAGGACATAAACTAG
Peptide sequence:
MVDRIDGQINYQAASPDEGALVNAARNFGFAFLARTQNTITVSELGSERTYNVLAILDFNSDRKRMSIIVRTPEGSIRLYCKGADTVIYERLHRMNPTKQETQDALDIFASETLRTLCLCYKEIEEKEFTEWNNKFMAASVASSNRDEALDKVYEEIEKDLILLGATAIEDKLQDGVPETISKLAKADIKIWVLTGDKKETAENIGFACELLTEDTTICYGEDIN
IRESfinder result
IRESfinder score
0.393788861
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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