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mmu_circAnkhd1_1212
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_1212
mm39_Chr. Position ID:
chr18|36711670|36728046|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,2450,4994,10730,12829,15467,16184
Genomic length:
16376
Exon/intron sizes in nt:
1,57,14,81,48,23,49,52,00,000
Flanking exon/introns:
chr18:36708222-36711670|chr18:36728046-36733818
Splice length:
1212
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215021, circAtlas: mmu-Ankhd1_0030
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_371275
Human Ortholog IDs:
Mature spliced Sequence:
GAATTGGCAAATTGTCAACTGCTGATGGTAAAGCTTTTGCAGATCCTGAAGTACTCCGGAGACTGACATCCTCAGTTAGCTGTGCCCTGGATGAAGCCGCTGCTGCACTGACACGGATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGAGGCTTCTCAGGAGG
59.53
TCATCCAGGGCACAGCTAAC
59.75
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGAGGCTTCTCAGGAGG
59.53
CATCCAGGGCACAGCTAACT
59.75
149
PCR template sequence:
ATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTGGAATTGGCAAATTGTCAACTGCTGATGGTAAAGCTTTTGCAGATCCTGAAGTACTCCGGAGACTGACATCCTCAGTTAGCTGTGCCCTGGATGAAGCCGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
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-148b-3p(1), mmu-miR-351-5p(1), mmu-miR-22-3p(1), mmu-miR-34b-5p(1), mmu-miR-297a-5p(1), mmu-miR-335-3p(1), mmu-miR-574-5p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGTTGGCTGCTGGAATTGGCAAATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_1212_ORF_1
1.2062
0.066968502
0.999999049
2307
ORF sequence:
ATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTGGAATTGGCAAATTGTCAACTGCTGATGGTAAAGCTTTTGCAGATCCTGAAGTACTCCGGAGACTGACATCCTCAGTTAGCTGTGCCCTGGATGAAGCCGCTGCTGCACTGACACGGATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCT
Peptide sequence:
MRAENTHSTGQVDTRSLAEACSDGDVNAVRKLLDEGRSVNEHTEEGESLLCLACSAGYYELAQVLLAMHANVEDRGNKGDITPLMAASSGGYLDIVKLLLLHDADVNSQSATGNTALTYACAGGFIDIVKVLLNEGANIEDHNENGHTPLMEAASAGHVEVARVLLDHGAGINTHSNEFKESALTLACYKGHLDMVRFLLEAGADQEHKTDEMHTALMEACMDGHVEVARLLLDSGAQVNMPADSFESPLTLAACGGHVELAALLIERGANLEEVNDEGYTPLMEAAREGHEEMVALLLAQGANINAQTEETQETALTLACCGGFSEVADFLIKAGADIELGCSTPLMEASQEGHLELVKYLLAAGIGKLSTADGKAFADPEVLRRLTSSVSCALDEAAAALTRMRAENTHSTGQVDTRSLAEACSDGDVNAVRKLLDEGRSVNEHTEEGESLLCLACSAGYYELAQVLLAMHANVEDRGNKGDITPLMAASSGGYLDIVKLLLLHDADVNSQSATGNTALTYACAGGFIDIVKVLLNEGANIEDHNENGHTPLMEAASAGHVEVARVLLDHGAGINTHSNEFKESALTLACYKGHLDMVRFLLEAGADQEHKTDEMHTALMEACMDGHVEVARLLLDSGAQVNMPADSFESPLTLAACGGHVELAALLIERGANLEEVNDEGYTPLMEAAREGHEEMVALLLAQGANINAQTEETQETALTLACCGGFSEVADFLIKAGADIELGCSTPLMEASQEGHLELVKYLLAA
IRESfinder result
IRESfinder score
0.518129416
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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