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mmu_circAnkhd1_1473
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkhd1_1473
mm39_Chr. Position ID:
chr18|36708071|36733928|+
Gene name:
Ankhd1
Transcript:
ENSMUST00000006205.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
2,3,4,5,6,7,8,9,10
Exon/intron offsets:
0,3599,6049,8593,14329,16428,19066,19783,25747
Genomic length:
25857
Exon/intron sizes in nt:
151,157,148,148,234,95,238,192,110
Flanking exon/introns:
chr18:36694108-36708071|chr18:36733928-36744852
Splice length:
1473
Other database IDs:
circBase: mmu_circ_0007283, CIRCpedia: MMU_CIRCpedia_18134, circAtlas: mmu-Ankhd1_0004
circBase: hsa_circ_0074247, circAtlas: hsa-ANKHD1-EIF4EBP3_0005, CIRCpedia: HSA_CIRCpedia_50498
Human Ortholog IDs:
Mature spliced Sequence:
GTAGAATCATTTATTTTGGACCAAGAAGATTTGGATAACCCAGTCCTTAAAACATCAGAGATATTCTTATCAAGTACAGCAGAAGGAGCAGATTTGCGCACAGTGGATCCAGAGACCCAAGCGAGACTGGAAGCATTGCTAGAAGCAGCAGGAATTGGCAAATTGTCAACTGCTGATGGTAAAGCTTTTGCAGATCCTGAAGTACTCCGGAGACTGACATCCTCAGTTAGCTGTGCCCTGGATGAAGCCGCTGCTGCACTGACACGGATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTGGTGCTAATGTGCATGCTACCACAGCTACAGGAGACACAGCTCTAACCTATGCTTGTGAAAATGGACATACAGATGTTGCAGATGTTCTACTTCAAGCAGGGGCCCATTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCTACAGGAGACACAGC
59.39
TGCTCCTTCTGCTGTACTTGA
59.03
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCTACAGGAGACACAGCT
59.11
TGCTCCTTCTGCTGTACTTGA
59.03
179
PCR template sequence:
GCATGCTACCACAGCTACAGGAGACACAGCTCTAACCTATGCTTGTGAAAATGGACATACAGATGTTGCAGATGTTCTACTTCAAGCAGGGGCCCATTTAGTAGAATCATTTATTTTGGACCAAGAAGATTTGGATAACCCAGTCCTTAAAACATCAGAGATATTCTTATCAAGTACAGCAGAAGGAGCAGATTTGCGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
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-1904(1), mmu-miR-574-5p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGGCCCATTTAGTAGAATCATTTA
siRNA sets
AATGATTCTACTAAATGGG, AAATGATTCTACTAAATGG, ATGATTCTACTAAATGGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKHD1_1473_ORF_1
1.1681
0.063181681
0.999999928
2679
ORF sequence:
ATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTGGTGCTAATGTGCATGCTACCACAGCTACAGGAGACACAGCTCTAACCTATGCTTGTGAAAATGGACATACAGATGTTGCAGATGTTCTACTTCAAGCAGGGGCCCATTTAGTAGAATCATTTATTTTGGACCAAGAAGATTTGGATAACCCAGTCCTTAAAACATCAGAGATATTCTTATCAAGTACAGCAGAAGGAGCAGATTTGCGCACAGTGGATCCAGAGACCCAAGCGAGACTGGAAGCATTGCTAGAAGCAGCAGGAATTGGCAAATTGTCAACTGCTGATGGTAAAGCTTTTGCAGATCCTGAAGTACTCCGGAGACTGACATCCTCAGTTAGCTGTGCCCTGGATGAAGCCGCTGCTGCACTGACACGGATGAGAGCAGAGAACACACACAGTACAGGACAAGTGGATACTCGCAGTCTGGCAGAAGCTTGTTCAGATGGAGATGTGAATGCTGTTCGTAAATTACTAGATGAAGGCAGAAGTGTAAATGAACATACAGAAGAAGGAGAAAGCCTGCTGTGTTTGGCTTGTTCAGCAGGATATTATGAACTAGCACAAGTACTACTAGCTATGCATGCTAATGTTGAAGATAGAGGGAATAAAGGAGATATAACTCCTTTGATGGCAGCTTCTAGTGGAGGTTATTTAGATATTGTGAAATTATTACTTCTTCATGATGCAGATGTCAACTCCCAGTCGGCAACAGGGAACACTGCACTGACTTATGCTTGTGCTGGAGGATTTATTGACATTGTAAAAGTGCTTCTTAATGAGGGTGCGAATATAGAAGACCATAATGAAAATGGACACACTCCCCTAATGGAAGCAGCCAGTGCCGGTCATGTAGAAGTTGCCAGAGTTCTTCTAGATCACGGTGCAGGCATCAACACTCATTCTAATGAGTTTAAAGAAAGTGCTCTGACACTTGCCTGCTACAAAGGCCATTTGGATATGGTTCGATTTTTGCTTGAAGCTGGTGCAGATCAAGAGCACAAAACCGATGAGATGCACACTGCCTTAATGGAAGCTTGCATGGATGGACATGTAGAGGTGGCACGTTTGCTTTTAGACAGTGGTGCTCAGGTGAATATGCCTGCGGATTCCTTTGAGTCTCCATTGACTCTAGCTGCCTGTGGTGGACATGTTGAATTAGCAGCACTGCTTATTGAAAGAGGAGCAAATCTTGAAGAAGTTAATGACGAAGGATACACGCCTTTGATGGAAGCTGCTCGAGAAGGACATGAAGAGATGGTGGCACTTCTATTGGCACAAGGTGCAAATATAAATGCCCAGACAGAAGAAACTCAAGAAACTGCTCTTACCTTGGCTTGCTGTGGAGGCTTTTCTGAAGTTGCAGATTTCTTGATTAAGGCAGGGGCTGACATAGAACTTGGCTGTTCTACACCTCTCATGGAGGCTTCTCAGGAGGGACACCTGGAGTTGGTTAAATATTTGTTGGCTGCTGGTGCTAATGTGCATGCTACCACAGCTACAGGAGACACAGCTCTAACCTATGCTTGTGAAAATGGACATACAGATGTTGCAGATGTTCTACTTCAAGCAGGGGCCCATTTA
Peptide sequence:
MRAENTHSTGQVDTRSLAEACSDGDVNAVRKLLDEGRSVNEHTEEGESLLCLACSAGYYELAQVLLAMHANVEDRGNKGDITPLMAASSGGYLDIVKLLLLHDADVNSQSATGNTALTYACAGGFIDIVKVLLNEGANIEDHNENGHTPLMEAASAGHVEVARVLLDHGAGINTHSNEFKESALTLACYKGHLDMVRFLLEAGADQEHKTDEMHTALMEACMDGHVEVARLLLDSGAQVNMPADSFESPLTLAACGGHVELAALLIERGANLEEVNDEGYTPLMEAAREGHEEMVALLLAQGANINAQTEETQETALTLACCGGFSEVADFLIKAGADIELGCSTPLMEASQEGHLELVKYLLAAGANVHATTATGDTALTYACENGHTDVADVLLQAGAHLVESFILDQEDLDNPVLKTSEIFLSSTAEGADLRTVDPETQARLEALLEAAGIGKLSTADGKAFADPEVLRRLTSSVSCALDEAAAALTRMRAENTHSTGQVDTRSLAEACSDGDVNAVRKLLDEGRSVNEHTEEGESLLCLACSAGYYELAQVLLAMHANVEDRGNKGDITPLMAASSGGYLDIVKLLLLHDADVNSQSATGNTALTYACAGGFIDIVKVLLNEGANIEDHNENGHTPLMEAASAGHVEVARVLLDHGAGINTHSNEFKESALTLACYKGHLDMVRFLLEAGADQEHKTDEMHTALMEACMDGHVEVARLLLDSGAQVNMPADSFESPLTLAACGGHVELAALLIERGANLEEVNDEGYTPLMEAAREGHEEMVALLLAQGANINAQTEETQETALTLACCGGFSEVADFLIKAGADIELGCSTPLMEASQEGHLELVKYLLAAGANVHATTATGDTALTYACENGHTDVADVLLQAGAHL
IRESfinder result
IRESfinder score
0.544266112
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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