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mmu_circAnkhd1_1017
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_1017
mm39_Chr. Position ID:
chr18|36716664|36733928|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
5,6,7,8,9,10
Exon/intron offsets:
0,5736,7835,10473,11190,17154
Genomic length:
17264
Exon/intron sizes in nt:
14,82,34,95,23,81,92,100
Flanking exon/introns:
chr18:36714268-36716664|chr18:36733928-36744852
Splice length:
1017
Other database IDs:
circBase: mmu_circ_0007290, CIRCpedia: MMU_CIRCpedia_18150, circAtlas: mmu-Ankhd1_0040
Human Ortholog IDs:
Mature spliced Sequence:
GTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTGGTGCTAATGTGCATGCTACCACAGCTACAGGAGACACAGCTCTAACCTATGCTTGTGAAAATGGACATACAGATGTTGCAGATGTTCTACTTCAAGCAGGGGCCCATTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTACAGGAGACACAGC
59.39
ACCTCCACTAGAAGCTGCCA
60.55
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTACAGGAGACACAGC
59.39
AACCTCCACTAGAAGCTGCC
59.38
175
PCR template sequence:
GCATGCTACCACAGCTACAGGAGACACAGCTCTAACCTATGCTTGTGAAAATGGACATACAGATGTTGCAGATGTTCTACTTCAAGCAGGGGCCCATTTAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-122-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-351-5p(1), mmu-miR-22-3p(1), mmu-miR-34b-5p(1), mmu-miR-335-3p(1), mmu-miR-574-5p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGGCCCATTTAGTACTACTAGCTA
siRNA sets
TAGTAGTACTAAATGGGCC, TAGTACTAAATGGGCCCCT, CTAGTAGTACTAAATGGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_1017_ORF_1
1.1852
0.060842796
0.999992139
2022
ORF sequence:
ATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTGGTGCTAATGTGCATGCTACCACAGCTACAGGAGACACAGCTCTAACCTATGCTTGTGAAAATGGACATACAGATGTTGCAGATGTTCTACTTCAAGCAGGGGCCCATTTAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTGGTGCTAATGTGCATGCTACCACAGCTACAGGAGACACAGCTCTAACCTATGCTTGTGAAAATGGACATACAGATGTTGCAGATGTTCTACTTCAAGCAGGGGCCCATTTA
Peptide sequence:
MHANVEDRGNKGDITPLMAASSGGYLDIVKLLLLHDADVNSQSATGNTALTYACAGGFIDIVKVLLNEGANIEDHNENGHTPLMEAASAGHVEVARVLLDHGAGINTHSNEFKESALTLACYKGHLDMVRFLLEAGADQEHKTDEMHTALMEACMDGHVEVARLLLDSGAQVNMPADSFESPLTLAACGGHVELAALLIERGANLEEVNDEGYTPLMEAAREGHEEMVALLLAQGANINAQTEETQETALTLACCGGFSEVADFLIKAGADIELGCSTPLMEASQEGHLELVKYLLAAGANVHATTATGDTALTYACENGHTDVADVLLQAGAHLVLLAMHANVEDRGNKGDITPLMAASSGGYLDIVKLLLLHDADVNSQSATGNTALTYACAGGFIDIVKVLLNEGANIEDHNENGHTPLMEAASAGHVEVARVLLDHGAGINTHSNEFKESALTLACYKGHLDMVRFLLEAGADQEHKTDEMHTALMEACMDGHVEVARLLLDSGAQVNMPADSFESPLTLAACGGHVELAALLIERGANLEEVNDEGYTPLMEAAREGHEEMVALLLAQGANINAQTEETQETALTLACCGGFSEVADFLIKAGADIELGCSTPLMEASQEGHLELVKYLLAAGANVHATTATGDTALTYACENGHTDVADVLLQAGAHL
IRESfinder result
IRESfinder score
0.546173331
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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