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mmu_circEya1_1013

Basic information of circular RNA
PanCircBase ID:

mmu_circEya1_1013

mm39_Chr. Position ID:

chr1|14279118|14353422|-

Gene name:

Eya1

Transcript:

ENSMUST00000027066.13

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

9

Exon/intron indexes:

12,11,10,9,8,7,6,5,4

Exon/intron offsets:

0,20598,22518,43533,44125,61810,65170,65639,74226

Genomic length:

74304

Exon/intron sizes in nt:

90,84,140,187,83,138,143,70,78

Flanking exon/introns:

chr1:14254908-14279118|chr1:14353422-14372993

Splice length:

1013

Other database IDs:

CIRCpedia: MMU_CIRCpedia_217913, circAtlas: mmu-Eya1_0008

circAtlas: hsa-EYA1_0006, CIRCpedia: HSA_CIRCpedia_114017

Human Ortholog IDs:
Mature spliced Sequence:

TTAAAACAGAGCCAATGAGCAGCAGTGAAATAGCTTCAACAGCAGCAGACGGGTCTTTAGACAGTTTCTCAGGTTCAGCTCTCGGAAGCAGCAGCTTTAGTCCAAGACCAGCTCACCCGTTCTCTCCACCACAGATTTATCCTTCCAAATCATACCCACATATTCTCCCTACCCCTTCCTCACAAACTATGGCTGCATATGGGCAAACACAGTTTACCACAGGAATGCAACAAGCCACAGCCTACGCCACGTACCCACAGCCTGGACAGCCCTATGGAATTTCCTCCTATGGTGCATTGTGGGCAGGCATCAAGACGGAAAGTGGATTGTCACAGTCTCAGTCACCTGGACAGACGGGATTTCTTAGCTATGGCACAAGCTTTGGTACCCCTCAACCTGGACAGGCACCGTACAGCTACCAGATGCAAGGTAGCAGCTTTACCACGTCATCAGGATTATATTCAGGAAATAATTCACTCACCAACTCCTCCGGATTCAACAGTTCACAGCAGGACTATCCGTCTTATCCCGGCTTTGGCCAGGGTCAGTACGCACAGTATTATAACAGCTCGCCGTATCCAGCACACTACATGACGAGCAGTAACACCAGCCCGACCACACCGTCCACCAATGCCACTTACCAACTCCAGGAACCACCTTCTGGCGTCACAAGTCAGGCGGTCACAGACCCCACAGCAGAGTACAGTACAATCCACAGTCCTTCCACACCCATTAAAGAGACTGACTCCGAGCGGCTGCGTCGAGGTTCAGATGGGAAGTCACGTGGCCGAGGCAGAAGAAACAATAATCCCTCCCCTCCCCCGGATTCTGACCTTGAGAGAGTGTTCATCTGGGACCTGGACGAGACCATCATTGTTTTCCACTCCTTGCTCACGGGGTCCTACGCCAACAGATACGGGAGGGATCCACCTACTTCTGTTTCCCTGGGACTACGAATGGAAGAGATGATTTTCAACTTGGCAGACACACATCTATTTTTCAATGACCTAGAA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TACGGGAGGGATCCACCTAC

59.81

TAAAGACCCGTCTGCTGCTG

60.04

158

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TCCCTGGGACTACGAATGGA

59.66

TCCGAGAGCTGAACCTGAGA

59.96

158

PCR template sequence:

ATACGGGAGGGATCCACCTACTTCTGTTTCCCTGGGACTACGAATGGAAGAGATGATTTTCAACTTGGCAGACACACATCTATTTTTCAATGACCTAGAATTAAAACAGAGCCAATGAGCAGCAGTGAAATAGCTTCAACAGCAGCAGACGGGTCTTTAGACAGTTTCTCAGGTTCAGCTCTCGGAAGCAGCAGCTTTAG

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-320-3p(2), mmu-miR-210-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-135a-5p(1), mmu-miR-200c-3p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-433-5p(1), mmu-miR-501-3p(1), mmu-miR-370-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CAATGACCTAGAATTAAAACAGAGCC

siRNA sets

TCTGTTTTAATTCTAGGTC,GCTCTGTTTTAATTCTAGG,CTCTGTTTTAATTCTAGGT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCEYA1_1013_ORF_1

0.6

0.157043054

0.978254793

1017

ORF sequence:

ATGAGCAGCAGTGAAATAGCTTCAACAGCAGCAGACGGGTCTTTAGACAGTTTCTCAGGTTCAGCTCTCGGAAGCAGCAGCTTTAGTCCAAGACCAGCTCACCCGTTCTCTCCACCACAGATTTATCCTTCCAAATCATACCCACATATTCTCCCTACCCCTTCCTCACAAACTATGGCTGCATATGGGCAAACACAGTTTACCACAGGAATGCAACAAGCCACAGCCTACGCCACGTACCCACAGCCTGGACAGCCCTATGGAATTTCCTCCTATGGTGCATTGTGGGCAGGCATCAAGACGGAAAGTGGATTGTCACAGTCTCAGTCACCTGGACAGACGGGATTTCTTAGCTATGGCACAAGCTTTGGTACCCCTCAACCTGGACAGGCACCGTACAGCTACCAGATGCAAGGTAGCAGCTTTACCACGTCATCAGGATTATATTCAGGAAATAATTCACTCACCAACTCCTCCGGATTCAACAGTTCACAGCAGGACTATCCGTCTTATCCCGGCTTTGGCCAGGGTCAGTACGCACAGTATTATAACAGCTCGCCGTATCCAGCACACTACATGACGAGCAGTAACACCAGCCCGACCACACCGTCCACCAATGCCACTTACCAACTCCAGGAACCACCTTCTGGCGTCACAAGTCAGGCGGTCACAGACCCCACAGCAGAGTACAGTACAATCCACAGTCCTTCCACACCCATTAAAGAGACTGACTCCGAGCGGCTGCGTCGAGGTTCAGATGGGAAGTCACGTGGCCGAGGCAGAAGAAACAATAATCCCTCCCCTCCCCCGGATTCTGACCTTGAGAGAGTGTTCATCTGGGACCTGGACGAGACCATCATTGTTTTCCACTCCTTGCTCACGGGGTCCTACGCCAACAGATACGGGAGGGATCCACCTACTTCTGTTTCCCTGGGACTACGAATGGAAGAGATGATTTTCAACTTGGCAGACACACATCTATTTTTCAATGACCTAGAATTAAAACAGAGCCAATGA

Peptide sequence:

MSSSEIASTAADGSLDSFSGSALGSSSFSPRPAHPFSPPQIYPSKSYPHILPTPSSQTMAAYGQTQFTTGMQQATAYATYPQPGQPYGISSYGALWAGIKTESGLSQSQSPGQTGFLSYGTSFGTPQPGQAPYSYQMQGSSFTTSSGLYSGNNSLTNSSGFNSSQQDYPSYPGFGQGQYAQYYNSSPYPAHYMTSSNTSPTTPSTNATYQLQEPPSGVTSQAVTDPTAEYSTIHSPSTPIKETDSERLRRGSDGKSRGRGRRNNNPSPPPDSDLERVFIWDLDETIIVFHSLLTGSYANRYGRDPPTSVSLGLRMEEMIFNLADTHLFFNDLELKQSQ

IRESfinder result

IRESfinder score

0.667334595

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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Institute of Life sciences, Bhubaneswar, India

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