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mmu_circDlgap1_634

Basic information of circular RNA
PanCircBase ID:

mmu_circDlgap1_634

mm39_Chr. Position ID:

chr17|70900161|70969804|+

Gene name:

Dlgap1

Transcript:

ENSMUST00000133983.8

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

6,7,8

Exon/intron offsets:

0,64287,69402

Genomic length:

69643

Exon/intron sizes in nt:

21,51,78,241

Flanking exon/introns:

chr17:70823991-70900161|chr17:70969804-71068069

Splice length:

634

Other database IDs:

circBase: mmu_circ_0000809, CIRCpedia: MMU_CIRCpedia_27526, circAtlas: mmu-Dlgap1_0014

circAtlas: hsa-DLGAP1_0016, CIRCpedia: HSA_CIRCpedia_144798

Human Ortholog IDs:
Mature spliced Sequence:

GTTCCCCAGGATGAATGGTCAGGGTACACACCTCGCGGGAAAGACGACGAGATCCCGTGCCGGAGGATGCGCAGTGGTAGCTACATCAAAGCCATGGGGGATGAAGACAGTGGGGACTCGGACACGAGCCCCAAGCCGTCTCCCAAGGTGGCTGCAAGAAGAGAAAGCTATCTCAAGGCCACGCAGCCGTCCCTTACAGAGCTCACCACTCTCAAGATCTCCAATGAACACTCCCCCAAACTCCAGATCCGGAGTCACAGCTACCTGAGGGCCGTAAGTGAAGTCTCCATCAACAGAAGCCTGGACAGCCTGGACCCTGCAGGCTTGCTCACGTCACCAAAGTTCCGCTCCAGAAACGAGAGCTACATGCGCGCCATGAGCACCATAAGTCAGGTGAGCGAGATGGAGGTGAACGGCCAGTTCGAATCCGTGTGCGAGTCTGTGTTCAGCGAGCTGGAGTCGCAGGCGGTGGAAGCGCTGGACCTGCCCCTGCCTGGCTGCTTCCGCATGCGGAGCCACAGCTATGTGCGGGCCATCGAAAAGGGCTGCTCCCAGGACGACGAATGCGTGTCGCTGCGGTCGTCCTCCCCTCCACGCACAACCACCACCGTGAGGACCATCCAGAGCAGCACCG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CTCCCAGGACGACGAATGC

60.52

GGGATCTCGTCGTCTTTCCC

59.9

142

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

GCTCCCAGGACGACGAATG

60.52

GGGATCTCGTCGTCTTTCCC

59.9

143

PCR template sequence:

ATCGAAAAGGGCTGCTCCCAGGACGACGAATGCGTGTCGCTGCGGTCGTCCTCCCCTCCACGCACAACCACCACCGTGAGGACCATCCAGAGCAGCACCGGTTCCCCAGGATGAATGGTCAGGGTACACACCTCGCGGGAAAGACGACGAGATCCCGTGCCGGAGGATGCGCAGTGGTAGCTACATCAAAGCCATGGGGG

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

4

Interacting miRNAs (#binding sites)

mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-122-5p(1), mmu-miR-324-5p(1)

siRNAs for circular RNA silencing
Junction sequence

CAGAGCAGCACCGGTTCCCCAGGATG

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCDLGAP1_634_ORF_1

1.0382

0.501681619

0.948288405

582

ORF sequence:

ATGCGCAGTGGTAGCTACATCAAAGCCATGGGGGATGAAGACAGTGGGGACTCGGACACGAGCCCCAAGCCGTCTCCCAAGGTGGCTGCAAGAAGAGAAAGCTATCTCAAGGCCACGCAGCCGTCCCTTACAGAGCTCACCACTCTCAAGATCTCCAATGAACACTCCCCCAAACTCCAGATCCGGAGTCACAGCTACCTGAGGGCCGTAAGTGAAGTCTCCATCAACAGAAGCCTGGACAGCCTGGACCCTGCAGGCTTGCTCACGTCACCAAAGTTCCGCTCCAGAAACGAGAGCTACATGCGCGCCATGAGCACCATAAGTCAGGTGAGCGAGATGGAGGTGAACGGCCAGTTCGAATCCGTGTGCGAGTCTGTGTTCAGCGAGCTGGAGTCGCAGGCGGTGGAAGCGCTGGACCTGCCCCTGCCTGGCTGCTTCCGCATGCGGAGCCACAGCTATGTGCGGGCCATCGAAAAGGGCTGCTCCCAGGACGACGAATGCGTGTCGCTGCGGTCGTCCTCCCCTCCACGCACAACCACCACCGTGAGGACCATCCAGAGCAGCACCGGTTCCCCAGGATGA

Peptide sequence:

MRSGSYIKAMGDEDSGDSDTSPKPSPKVAARRESYLKATQPSLTELTTLKISNEHSPKLQIRSHSYLRAVSEVSINRSLDSLDPAGLLTSPKFRSRNESYMRAMSTISQVSEMEVNGQFESVCESVFSELESQAVEALDLPLPGCFRMRSHSYVRAIEKGCSQDDECVSLRSSSPPRTTTTVRTIQSSTGSPG

IRESfinder result

IRESfinder score

0.242066459

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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