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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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