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mmu_ciKmt2c_3233

Basic information of circular RNA
PanCircBase ID:

mmu_ciKmt2c_3233

mm39_Chr. Position ID:

chr5|25500634|25503867|-

Gene name:

Kmt2c

Transcript:

ENSMUST00000174734.8

CircRNA type:

Circular intronic (ci)RNA

Exon/Intron count:

1

Exon/intron indexes:

1

Exon/intron offsets:

0

Genomic length:

3233

Exon/intron sizes in nt:

3233

Flanking exon/introns:

chr5:25500608-25503867

Splice length:

3233

Other database IDs:

Human Ortholog IDs:
Mature spliced Sequence:

GTAAGTGTCAGTTGTGAAAACAGCTGTATCTGTTTTTAAGCTATCGCAGTAGATTAGTATCAACAAATTTCTAATTTTAAACTTTCTTGTGCAAAGAATCATGGTTTTTTGTTTTGTTTTGTTTTTATTTCTGTAGAACCCTGTTTTTACTTATATTTACAAAATATATGAGTGACTCATTTGCTTGTTATATAAAGTAAACATGAATCATTATGTGTGCCTTTCAGCTGGTTATCATAACCAAGTTGGACTAACTATAGCAAAGGAAGTATGTGTGAATCTTTATTATAAATAAGTGCATAATTTCTATTAGCCTCTCTAAAATTTAGAAGACAGCTCCTGTACTTGTCTTACTTTCCTTGAGTACTCTCAGGGATGTCTCTTATTGGGAACTTACTGTGTCAGAAAAATAACATGATTTTAGATGTGGATACTATTTCCATCTTTGTAGTTTTCTATGTATCGATATTCTACCCATTTTAAGTGTTAACATTGGATTTTCTTTCCATTTGTATTTATAGACAGTTTTAAATACACACTTTGAATACAGAGTGACCCCCATTTCAGTGAACCTAATTAAGATGTTTCACAACCAGGAGTTTCTCTGCCTTTTGAATAGGTCTGCTTGTTGCTTTGCTCCTTGTCTTTCATAAGTATCAGTGGTTATTAGTGCATTCACACAGCTTCCCTGGGGTGCTGCTCAGTTTGGTTTTATAATTTTTACATTGTAATTGAAGTACAGTAGAGTTTTACTTGTCTAAGTTTGCAATTTTAAGAATAATGAGACTTGTTGTTTTGCAAGTGTTGGCTCTCCTCTCTTCTGTTGTCTCCTGTCGTTCAGTAGAGATTGAGCATTCTCGCAGTTGTTACTTTTGTCTAATTGGCAGTTATGGTCTCTTCTTCCTCTTTAATCTTTGAGAGTCTCGTGCATGCAAACAGTGCATCTTGTGGTTGTGTTTTTCTAGTTGTTACAATATGCTCTCCAGGTCCAGTCCTTGGCTGATGACTCCAGGGTGTTTTGTGTCTGGGAATACTGAATGCCCTCAGCCCTGTGCCCACAGTGCCCTCTGTGCCCCATGTGCTGCAACTCTTTCTTTTCTCCTATCCTTTTCTAATGTCTTTTTCTTTGTGAAACTTAGTTCTGAAATCTTGTAATGAGCTTCCTGAACTTGACCAACCACAGATGTGTGGATGCCCATGCGTTCACCTCTTAGTTGCGGGGGCTTGACTCACATAAGAACTACCATCAGCATGTCCATACTACAATTTGTGTTATTCAAGACTATTTAATGGCACAGGGAAGCAGGCACGTGTCAAGTATAGAAAGCAGAAGCTAAGAGATTAGAATGAGCATGAGGTGTATGCTCTTGATCCTTGTGATTAAAACAACAAACCATTTGAAGCTGTGCATGGTGGTACCTGCCTGTAATCTCAGCACTCAGGAACTTGAGGCAGGAAGATTGCTGCAGGGTCAAGGGCAGTCTGAGCTACAAAGTGAAACTTTTACACAAACTAGTAAACAAAAAATTCAAAATCTTTTGTGATCTTTTATACTCGTCTTTTGAAACATAGCTGGATTTACTTTGTAGAATAATTATAAAAGTTAGAGATACTATCTGTAAAGCGTCTAAAGTGGCTGAGTTATGCAAACTTAACATGCTTGCCTGCTCAGTCTTTCATAAGCCAATTACAAAAGTTGCATGTCTTTAAGGACATCAGCATCCATGGTCCCCGGGTGGTTTGAGAGCATACCAGATTTGTTTGTGCTGCTGTGTTCCTAAATCAGAACGCACTGTTCAGCGAGATTGCCCTGGTGACTCAGTGCTGTAGGCCTGCTGATAGTCATCTGGTGAGCCTGTTAAGACAGACATTGCTGGTTCATTGTGTAGGCTGGACCAGGGAATCTGCATTTCTAATCAGTCCCAGGAGCTGCTGTGTTGCTCTGATACTGCTCTTGGAGAATCAGGGTTCTACCCAGGCAGAGGCAATATAAGCCTACTTCAACTTCCTCCCTTTGTATGAGCTAAGAAGAAAAAGTAGTAGTAATTATTAATAAATGAAGTTATATGAAATTTAAATTTGTTCATGAATTTTAAAAGTTGTATTGGACCATGGCCAACTCATTTATAAAAATTATACAGCTGTTTTTGCAGTACTGTATCAGAACCCATAGTTCACACAGACCACATGGTTCATAGGCTAAAATTATTACCCTGTTTTCCTTTATAATTTGCCACCCATGTGATGTTTTTATAACAATCAGAAAATCTAATTTTCAAAACACTTAAAAGTTAAATGGTTTCACTAAGTTTTTCAATTATACTTGTTCTTAGCAAACCATTAATAATAGTTTTAGAAATAAGAAAGCGTGAAAAATATTCCTGTGTTTTGATATTGGTACTTCTGGACTTAGATAAAACCTTTTTCAAGGCCTGTATTACTCTTACATCTTTGTGACCATGAAAGCAAAAGGAAAGGAAGGGACCTAGAGCAGAGATGGCTTAATGGTTAAGAGAATTAATGATTCTTGCAGAGGGCCTCTCATAGTGGCTTATAACCATTTGTAGCTCCAGTTTGAGAGGATTCAGTGCTCTTTTCTGATTTTCACAGGCACCAGGCATGCATATGGTGTCTATACATTGTATTCACATAGACAAGATATTCAAACACATTAAATAAATAAATCATTTTTAAAAGCAAAGGAAAAATTAATTTGCTATTATCTGTGTACGTAGCCATTACGTTTTTCATTCAAGCATAGATTTTGACACTAGTTTGAGGGGCCAGTATGACGTCTTCGAGCTTTCTAGCTGCTCTTTTCTTACCTCTGGTGCATGAGCTTAAGATGTTCCTGGAACCTGTGAATTAGCTTCACATCTCAGATTGCAACAGGTCTTAGTTCCTATGGGGGGAGGGGAAATAAATTGCCAAAAACACAGCTCAGAAGCTGCTCGTTCATCTGGCATGGTGCTTCCCTGGTCTCAGCTTAGATAGTGAGGAGCTATACTTCATTCTTGTTTCTAGTTCTGCAATCTCCTGGTTGCTGAGACTGGCGCTATTTTTCATATTTTAATATACCTTAATGCAGAGGGAAGAGGGAACAGTTATTTTCAGAAAACAACTTCATTCTGTAACTTCCCCCCTTTAAATTGGGATGCCATGTTAGAAATATGAGTCACAAGTTGGAGCTGGTCTAGCATGAACTAAGAATCAAACATGTGGGAAGTTACTTA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

CCCCCTTTAAATTGGGATGCC

59.23

TGTTGATACTAATCTACTGCGATAGCT

59.82

160

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CCCCCTTTAAATTGGGATGCC

59.23

TGTTGATACTAATCTACTGCGATAGC

58.69

160

PCR template sequence:

ACTTCCCCCCTTTAAATTGGGATGCCATGTTAGAAATATGAGTCACAAGTTGGAGCTGGTCTAGCATGAACTAAGAATCAAACATGTGGGAAGTTACTTAGTAAGTGTCAGTTGTGAAAACAGCTGTATCTGTTTTTAAGCTATCGCAGTAGATTAGTATCAACAAATTTCTAATTTTAAACTTTCTTGTGCAAAGAATC

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

32

Interacting miRNAs (#binding sites)

mmu-miR-15a-5p(2), mmu-miR-322-5p(2), mmu-miR-15b-5p(2), mmu-miR-124-3p(1), mmu-miR-16-5p(1), mmu-miR-101a-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-335-5p(1), mmu-miR-29c-3p(1), mmu-miR-101b-3p(1), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-503-5p(1), mmu-miR-125a-5p(1), mmu-miR-22-3p(1), mmu-miR-501-3p(1), mmu-miR-382-5p(1), mmu-miR-340-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-410-3p(1), mmu-miR-452-3p(1), mmu-miR-188-3p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-193b-3p(1), mmu-miR-574-5p(1), mmu-miR-7a-1-3p(1), mmu-miR-7a-2-3p(1)

siRNAs for circular RNA silencing
Junction sequence

GGGAAGTTACTTAGTAAGTGTCAGTT

siRNA sets

CACTTACTAAGTAACTTCC, AACTGACACTTACTAAGTA, ACTTACTAAGTAACTTCCC

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

NA

NA

NA

NA

NA

ORF sequence:

NA

Peptide sequence:

NA

IRESfinder result

IRESfinder score

0.884982886

IRES/non IRES

IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

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