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mmu_circPappa2_1218

Basic information of circular RNA
PanCircBase ID:

mmu_circPappa2_1218

mm39_Chr. Position ID:

chr1|158698971|158764587|-

Gene name:

Pappa2

Transcript:

ENSMUST00000159861.9

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

2

Exon/intron indexes:

3,2

Exon/intron offsets:

0,64544

Genomic length:

65616

Exon/intron sizes in nt:

14,61,072

Flanking exon/introns:

chr1:158684997-158698971|chr1:158764587-158784086

Splice length:

1218

Other database IDs:

circAtlas: hsa-PAPPA2_0021

Human Ortholog IDs:
Mature spliced Sequence:

GTGTGTTTGATAACTGCTCCCACACAGTCAATGACAAGGGCTGGGCCCTGGGGATCCGCTCAGGGAAGGACAAGGGGTGGAGAGATGCTCGCTTCTTCTTTTCCCTCCGCACTGACCGGATGAAGAAAGCCACTATTGTGACTGGCCACAGCCGTTACCAGCCAGGCATGTGGACTCATGTAGCAGCCACTTACGATGGACAGCATACAGCTCTGTATGTGGATGGCACTCGAGTGGCTAGTAGTCGTGACCAGTTTGGACCGCTAAATAGCCCTTTCATGGCGTCTTGCCGCTCTTTAATCCTGGGAGGGGACAGCTCCGAGGATGGACATTATTTCCGTGGTTACCTGGGCACACTGGTAATCTGGTCGACCGCCCTTTCACAAACCCACCTCCAGCACAGTCCCCTGCATCCAAGTGCAGCAGATGAGTTGACCACCCTGATCCTGACAGCCACTTTCGATCCTCTGATGGAACAGTGGGCTCCATTTAGAGATGACTTATATCCCCGGCTGGAGGTTCTCCAGGACTCTGAGTCACAGCCTGAGATTCTGTCACCTTTACAACCCCCACCTTGTGGGCAAACAGCTTGTGACAATGTGGAACTCATCTCCCAGTACAATAAGCATGGGCCCCTTCGTAGAGAGAAAGTGATCCGCTACCAGGTGGTAAACATCTATGATGATGAGGGTCTGCATCCCATTGTGAGTGATCATCAGATCCGCCGTCAGCATGAGGCCCTCAACCAGGCCTTCAGCCGCTACAATATCAGCTGGCAGCTGAGTGTCCACCGAGTCCACAACTCCACCCTGCGCCACCGGGTTGTGCTTGTTAATTGTGAGCCCAGCAAGATTGGCAATGACCACTGTGACCCTGAATGTGAGCATCCACTCACCGGCTTCGATGGGGGCGATTGCCGCCTGCAGGGACGCTGCTACTCCTGGAATCGCAGGGATGGCCTCTGTCACGTGGAGTGCAACAACATGCTGAATGACTTCGATGATGGAGACTGCTGCGATCCGGAAGTGACTGATGTCCGAAAGACTTGCTTTGATCCTGACTCACCCAAGAGGGCATACATGAGTGTGAAGGAACTAAAGGAGGCCTTGCAGCTCAACAGCACTCACTTCCTTAATGTCTACTTCGCCAGCTCAGTCCGGGAAGACCTTGCAGGTTCTGCCACATGGCCCTGGGACAAGGAAGCTCTCAGTCACCTGG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CTACTTCGCCAGCTCAGTCC

60.18

GCATCTCTCCACCCCTTGTC

60.11

168

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CTCAGTCCGGGAAGACCTTG

59.75

GCATCTCTCCACCCCTTGTC

60.11

156

PCR template sequence:

AGCACTCACTTCCTTAATGTCTACTTCGCCAGCTCAGTCCGGGAAGACCTTGCAGGTTCTGCCACATGGCCCTGGGACAAGGAAGCTCTCAGTCACCTGGGTGTGTTTGATAACTGCTCCCACACAGTCAATGACAAGGGCTGGGCCCTGGGGATCCGCTCAGGGAAGGACAAGGGGTGGAGAGATGCTCGCTTCTTCTT

Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs

18

Interacting miRNAs (#binding sites)

mmu-miR-23b-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-181a-5p(1), mmu-miR-221-3p(1), mmu-miR-31-5p(1), mmu-miR-216a-5p(1), mmu-miR-222-3p(1), mmu-miR-23a-3p(1), mmu-miR-181b-5p(1), mmu-miR-127-3p(1), mmu-miR-351-5p(1), mmu-miR-22-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-452-3p(1), mmu-miR-670-5p(1), mmu-miR-181d-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CTCAGTCACCTGGGTGTGTTTGATAA

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCPAPPA2_1218_ORF_1

1.0067

0.338153006

0.999999573

2316

ORF sequence:

ATGAAGAAAGCCACTATTGTGACTGGCCACAGCCGTTACCAGCCAGGCATGTGGACTCATGTAGCAGCCACTTACGATGGACAGCATACAGCTCTGTATGTGGATGGCACTCGAGTGGCTAGTAGTCGTGACCAGTTTGGACCGCTAAATAGCCCTTTCATGGCGTCTTGCCGCTCTTTAATCCTGGGAGGGGACAGCTCCGAGGATGGACATTATTTCCGTGGTTACCTGGGCACACTGGTAATCTGGTCGACCGCCCTTTCACAAACCCACCTCCAGCACAGTCCCCTGCATCCAAGTGCAGCAGATGAGTTGACCACCCTGATCCTGACAGCCACTTTCGATCCTCTGATGGAACAGTGGGCTCCATTTAGAGATGACTTATATCCCCGGCTGGAGGTTCTCCAGGACTCTGAGTCACAGCCTGAGATTCTGTCACCTTTACAACCCCCACCTTGTGGGCAAACAGCTTGTGACAATGTGGAACTCATCTCCCAGTACAATAAGCATGGGCCCCTTCGTAGAGAGAAAGTGATCCGCTACCAGGTGGTAAACATCTATGATGATGAGGGTCTGCATCCCATTGTGAGTGATCATCAGATCCGCCGTCAGCATGAGGCCCTCAACCAGGCCTTCAGCCGCTACAATATCAGCTGGCAGCTGAGTGTCCACCGAGTCCACAACTCCACCCTGCGCCACCGGGTTGTGCTTGTTAATTGTGAGCCCAGCAAGATTGGCAATGACCACTGTGACCCTGAATGTGAGCATCCACTCACCGGCTTCGATGGGGGCGATTGCCGCCTGCAGGGACGCTGCTACTCCTGGAATCGCAGGGATGGCCTCTGTCACGTGGAGTGCAACAACATGCTGAATGACTTCGATGATGGAGACTGCTGCGATCCGGAAGTGACTGATGTCCGAAAGACTTGCTTTGATCCTGACTCACCCAAGAGGGCATACATGAGTGTGAAGGAACTAAAGGAGGCCTTGCAGCTCAACAGCACTCACTTCCTTAATGTCTACTTCGCCAGCTCAGTCCGGGAAGACCTTGCAGGTTCTGCCACATGGCCCTGGGACAAGGAAGCTCTCAGTCACCTGGGTGTGTTTGATAACTGCTCCCACACAGTCAATGACAAGGGCTGGGCCCTGGGGATCCGCTCAGGGAAGGACAAGGGGTGGAGAGATGCTCGCTTCTTCTTTTCCCTCCGCACTGACCGGATGAAGAAAGCCACTATTGTGACTGGCCACAGCCGTTACCAGCCAGGCATGTGGACTCATGTAGCAGCCACTTACGATGGACAGCATACAGCTCTGTATGTGGATGGCACTCGAGTGGCTAGTAGTCGTGACCAGTTTGGACCGCTAAATAGCCCTTTCATGGCGTCTTGCCGCTCTTTAATCCTGGGAGGGGACAGCTCCGAGGATGGACATTATTTCCGTGGTTACCTGGGCACACTGGTAATCTGGTCGACCGCCCTTTCACAAACCCACCTCCAGCACAGTCCCCTGCATCCAAGTGCAGCAGATGAGTTGACCACCCTGATCCTGACAGCCACTTTCGATCCTCTGATGGAACAGTGGGCTCCATTTAGAGATGACTTATATCCCCGGCTGGAGGTTCTCCAGGACTCTGAGTCACAGCCTGAGATTCTGTCACCTTTACAACCCCCACCTTGTGGGCAAACAGCTTGTGACAATGTGGAACTCATCTCCCAGTACAATAAGCATGGGCCCCTTCGTAGAGAGAAAGTGATCCGCTACCAGGTGGTAAACATCTATGATGATGAGGGTCTGCATCCCATTGTGAGTGATCATCAGATCCGCCGTCAGCATGAGGCCCTCAACCAGGCCTTCAGCCGCTACAATATCAGCTGGCAGCTGAGTGTCCACCGAGTCCACAACTCCACCCTGCGCCACCGGGTTGTGCTTGTTAATTGTGAGCCCAGCAAGATTGGCAATGACCACTGTGACCCTGAATGTGAGCATCCACTCACCGGCTTCGATGGGGGCGATTGCCGCCTGCAGGGACGCTGCTACTCCTGGAATCGCAGGGATGGCCTCTGTCACGTGGAGTGCAACAACATGCTGAATGACTTCGATGATGGAGACTGCTGCGATCCGGAAGTGACTGATGTCCGAAAGACTTGCTTTGATCCTGACTCACCCAAGAGGGCATACATGAGTGTGAAGGAACTAAAGGAGGCCTTGCAGCTCAACAGCACTCACTTCCTTAATGTCTACTTCGCCAGCTCAGTCCGGGAAGACCTTGCAGGTTCTGCCACATGGCCCTGGGACAAGGAAGCTCTCAGTCACCTG

Peptide sequence:

MKKATIVTGHSRYQPGMWTHVAATYDGQHTALYVDGTRVASSRDQFGPLNSPFMASCRSLILGGDSSEDGHYFRGYLGTLVIWSTALSQTHLQHSPLHPSAADELTTLILTATFDPLMEQWAPFRDDLYPRLEVLQDSESQPEILSPLQPPPCGQTACDNVELISQYNKHGPLRREKVIRYQVVNIYDDEGLHPIVSDHQIRRQHEALNQAFSRYNISWQLSVHRVHNSTLRHRVVLVNCEPSKIGNDHCDPECEHPLTGFDGGDCRLQGRCYSWNRRDGLCHVECNNMLNDFDDGDCCDPEVTDVRKTCFDPDSPKRAYMSVKELKEALQLNSTHFLNVYFASSVREDLAGSATWPWDKEALSHLGVFDNCSHTVNDKGWALGIRSGKDKGWRDARFFFSLRTDRMKKATIVTGHSRYQPGMWTHVAATYDGQHTALYVDGTRVASSRDQFGPLNSPFMASCRSLILGGDSSEDGHYFRGYLGTLVIWSTALSQTHLQHSPLHPSAADELTTLILTATFDPLMEQWAPFRDDLYPRLEVLQDSESQPEILSPLQPPPCGQTACDNVELISQYNKHGPLRREKVIRYQVVNIYDDEGLHPIVSDHQIRRQHEALNQAFSRYNISWQLSVHRVHNSTLRHRVVLVNCEPSKIGNDHCDPECEHPLTGFDGGDCRLQGRCYSWNRRDGLCHVECNNMLNDFDDGDCCDPEVTDVRKTCFDPDSPKRAYMSVKELKEALQLNSTHFLNVYFASSVREDLAGSATWPWDKEALSHL

IRESfinder result

IRESfinder score

0.442508682

IRES/non IRES

non-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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