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mmu_circAtp8b1_1487
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b1_1487
mm39_Chr. Position ID:
chr18|64678187|64697622|-
Gene name:
Atp8b1
Transcript:
ENSMUST00000025482.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
22,21,20,19,18,17,16,15,14,13
Exon/intron offsets:
0,874,5254,6723,7897,9997,11724,16463,17053,19226
Genomic length:
19435
Exon/intron sizes in nt:
289,133,76,112,165,113,189,157,44,209
Flanking exon/introns:
chr18:64674572-64678187|chr18:64697622-64701136
Splice length:
1487
Other database IDs:
circAtlas: hsa-ATP8B1_0026
Human Ortholog IDs:
Mature spliced Sequence:
TGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATGGAGACCATCGAGATGCTTCTCAACACAGCCACAGCAAAATCGAGCTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGATATCTTTGCAAGTGAGACTCTCAGGACCCTGTGCCTGTGCTACAAGGAAATTGAAGAAAAAGAATTTACAGAATGGAATAATAAGTTTATGGCCGCCAGCGTGGCCTCAAGCAACCGAGACGAAGCGTTGGATAAAGTGTACGAGGAGATTGAGAAAGACTTGATTCTCTTGGGAGCTACTGCTATTGAAGACAAGCTACAGGATGGAGTCCCAGAAACCATTTCAAAACTTGCAAAAGCTGACATTAAGATCTGGGTACTCACCGGAGACAAAAAGGAAACTGCAGAAAACATAGGTTTTGCCTGTGAACTCTTGACGGAAGACACTACTATCTGCTACGGAGAGGACATAAACTCTCTTCTTCACACCAGGATGGAGAATCAGAGAAACAGAGGTGGAGTCTCTGCGAAATTTGCACCTCCTGTGTATGAACCCTTTTTTCCACCTGGAGAAAACCGTGCCTTAATCATCACTGGCTCCTGGCTGAATGAAATCCTTCTAGAGAAGAAGACCAAGAGAAGTAAGATCCTGAAGCTGAAGTTCCCAAGGACAGAGGAGGAGAGGCGGATGCGGAGCCAGAGCCGGAGACGGCTGGAAGAGAAGAAAGAGCAGCGGCAAAAGAACTTCGTGGACCTGGCCTGCGAGTGCAGCGCCGTCATCTGCTGCCGCGTCACGCCCAAGCAGAAGGCCATGGTGGTGGACCTGGTGAAGAGGTACAAGAAAGCCATCACCCTGGCCATCGGAGACGGGGCCAATGATGTCAACATGATCAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTGGACCTGGTGAAGAG
59.96
GGCAGGAGTGTCCTTCTCAG
59.75
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTGGACCTGGTGAAGAG
59.96
CCTTGGCAGGAGTGTCCTTC
60.32
168
PCR template sequence:
CCCAAGCAGAAGGCCATGGTGGTGGACCTGGTGAAGAGGTACAAGAAAGCCATCACCCTGGCCATCGGAGACGGGGCCAATGATGTCAACATGATCAAAATGTGGAAGTGATCCGTCTGGGACAGAGTCATTTCATCAACTGGGACCTGCAGATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(2), mmu-miR-135a-5p(1), mmu-miR-19b-3p(1), mmu-miR-101a-3p(1), mmu-miR-19a-3p(1), mmu-miR-101b-3p(1), mmu-miR-203-3p(1), mmu-miR-125b-5p(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACATGATCAAAATGTGGAAGTGATC
siRNA sets
TTCCACATTTTGATCATGT, CTTCCACATTTTGATCATG, GATCACTTCCACATTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B1_1487_ORF_1
1.1261
0.385461354
0.999848129
1446
ORF sequence:
ATGTACTATGCTGAGAAGGACACTCCTGCCAAGGCGAGGACCACCACCTTGAATGAGCAGCTAGGGCAGATTCATTACATCTTCTCTGATAAGACGGGGACACTCACGCAAAATATCATGACCTTCAAAAAGTGCTGCATTAACGGGACTATCTATGGAGACCATCGAGATGCTTCTCAACACAGCCACAGCAAAATCGAGCTAGTGGACTTTAGCTGGAATACATTTGCCGATGGAAAGCTTGCATTTTATGACCATTACCTTATCGAGCAAATACAGTCAGGGAAAGAGCCAGAAGTACGACAGTTCTTCTTTTTGCTTTCGATTTGCCATACGGTCATGGTGGACAGAATTGATGGTCAGATCAACTACCAGGCGGCTTCTCCTGATGAAGGCGCCCTGGTAAACGCCGCCAGGAACTTCGGCTTTGCCTTTCTCGCCCGGACGCAGAACACCATCACCGTCAGCGAACTGGGCTCAGAGAGGACCTACAACGTCCTTGCCATTTTGGATTTCAACAGCGACCGAAAGCGGATGTCTATCATCGTGAGGACCCCAGAAGGTAGTATCCGGCTGTACTGTAAAGGTGCTGACACCGTGATTTATGAACGGCTCCATCGGATGAATCCTACGAAGCAAGAAACACAGGATGCCCTGGATATCTTTGCAAGTGAGACTCTCAGGACCCTGTGCCTGTGCTACAAGGAAATTGAAGAAAAAGAATTTACAGAATGGAATAATAAGTTTATGGCCGCCAGCGTGGCCTCAAGCAACCGAGACGAAGCGTTGGATAAAGTGTACGAGGAGATTGAGAAAGACTTGATTCTCTTGGGAGCTACTGCTATTGAAGACAAGCTACAGGATGGAGTCCCAGAAACCATTTCAAAACTTGCAAAAGCTGACATTAAGATCTGGGTACTCACCGGAGACAAAAAGGAAACTGCAGAAAACATAGGTTTTGCCTGTGAACTCTTGACGGAAGACACTACTATCTGCTACGGAGAGGACATAAACTCTCTTCTTCACACCAGGATGGAGAATCAGAGAAACAGAGGTGGAGTCTCTGCGAAATTTGCACCTCCTGTGTATGAACCCTTTTTTCCACCTGGAGAAAACCGTGCCTTAATCATCACTGGCTCCTGGCTGAATGAAATCCTTCTAGAGAAGAAGACCAAGAGAAGTAAGATCCTGAAGCTGAAGTTCCCAAGGACAGAGGAGGAGAGGCGGATGCGGAGCCAGAGCCGGAGACGGCTGGAAGAGAAGAAAGAGCAGCGGCAAAAGAACTTCGTGGACCTGGCCTGCGAGTGCAGCGCCGTCATCTGCTGCCGCGTCACGCCCAAGCAGAAGGCCATGGTGGTGGACCTGGTGAAGAGGTACAAGAAAGCCATCACCCTGGCCATCGGAGACGGGGCCAATGATGTCAACATGATCAAAATGTGGAAGTGA
Peptide sequence:
MYYAEKDTPAKARTTTLNEQLGQIHYIFSDKTGTLTQNIMTFKKCCINGTIYGDHRDASQHSHSKIELVDFSWNTFADGKLAFYDHYLIEQIQSGKEPEVRQFFFLLSICHTVMVDRIDGQINYQAASPDEGALVNAARNFGFAFLARTQNTITVSELGSERTYNVLAILDFNSDRKRMSIIVRTPEGSIRLYCKGADTVIYERLHRMNPTKQETQDALDIFASETLRTLCLCYKEIEEKEFTEWNNKFMAASVASSNRDEALDKVYEEIEKDLILLGATAIEDKLQDGVPETISKLAKADIKIWVLTGDKKETAENIGFACELLTEDTTICYGEDINSLLHTRMENQRNRGGVSAKFAPPVYEPFFPPGENRALIITGSWLNEILLEKKTKRSKILKLKFPRTEEERRMRSQSRRRLEEKKEQRQKNFVDLACECSAVICCRVTPKQKAMVVDLVKRYKKAITLAIGDGANDVNMIKMWK
IRESfinder result
IRESfinder score
0.38638467
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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