top of page
mmu_circAtp8b1_712
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b1_712
mm39_Chr. Position ID:
chr18|64688184|64697622|-
Gene name:
Atp8b1
Transcript:
ENSMUST00000025482.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
17,16,15,14,13
Exon/intron offsets:
0,1727,6466,7056,9229
Genomic length:
9438
Exon/intron sizes in nt:
1,13,18,91,57,44,209
Flanking exon/introns:
chr18:64686249-64688184|chr18:64697622-64701136
Splice length:
712
Other database IDs:
circAtlas: hsa-ATP8B1_0002, CIRCpedia: HSA_CIRCpedia_24060
Human Ortholog IDs:
Mature spliced Sequence:
TGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATGGAGACCATCGAGATGCTTCTCAACACAGCCACAGCAAAATCGAGCTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAACGGCTCCATCGGATGAA
60.18
CCTTGGCAGGAGTGTCCTTC
60.32
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAACGGCTCCATCGGATG
60.25
CCTTGGCAGGAGTGTCCTTC
60.32
142
PCR template sequence:
AGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGATTGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-101a-3p(1), mmu-miR-101b-3p(1), mmu-miR-149-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGATGCCCTGGATTGTGGAAGTGATC
siRNA sets
ATCACTTCCACAATCCAGG, CACTTCCACAATCCAGGGC, TCACTTCCACAATCCAGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B1_712_ORF_1
1.0202
0.321804532
0.959904857
726
ORF sequence:
ATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATGGAGACCATCGAGATGCTTCTCAACACAGCCACAGCAAAATCGAGCTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGATTGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGA
Peptide sequence:
MYYAEKDTPAKARTTTLNEQLGQIHYIFSDKTGTLTQNIMTFKKCCINGTIYGDHRDASQHSHSKIELVDFSWNTFADGKLAFYDHYLIEQIQSGKEPEVRQFFFLLSICHTVMVDRIDGQINYQAASPDEGALVNAARNFGFAFLARTQNTITVSELGSERTYNVLAILDFNSDRKRMSIIVRTPEGSIRLYCKGADTVIYERLHRMNPTKQETQDALDCGSDPSGTESFHQLGPADVLC
IRESfinder result
IRESfinder score
0.380084194
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page