top of page

mmu_circTmtc2_383

Basic information of circular RNA
PanCircBase ID:

mmu_circTmtc2_383

mm39_Chr. Position ID:

chr10|105079449|105139576|-

Gene name:

Tmtc2

Transcript:

ENSMUST00000061506.9

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

4

Exon/intron indexes:

11,10,9,8

Exon/intron offsets:

0,11206,27910,60005

Genomic length:

60127

Exon/intron sizes in nt:

6,41,15,82,122

Flanking exon/introns:

chr10:105026135-105079449|chr10:105139576-105157256

Splice length:

383

Other database IDs:

circBase: mmu_circ_0001911, CIRCpedia: MMU_CIRCpedia_36618, circAtlas: mmu-Tmtc2_0015

circBase: hsa_circ_0099374, circAtlas: hsa-TMTC2_0014, CIRCpedia: HSA_CIRCpedia_9699

Human Ortholog IDs:
Mature spliced Sequence:

GTGAAGCCTACATGAGACTGAGTAAGCTTCCTGAAGCTGAGCATTGGTACATGGAATCACTGAGATCCAAGACCGATCACATCCCTGCTCATCTCACCTACGGGAAGCTGCTCGCCTTAACAGGTCGTAAGAGTGAGGCTGAAAAGTTCTTCTTGAAGGCTATTGAGCTGGATCCTACCAAAGGAAACTGTTACATGCACTATGGTCAGTTTCTCCTAGAAGAGTCTCGCCTCACAGAAGCAGCAGAGATGGCAAAGAAAGCAGCTGAGCTGGACAACACAGAGTTCGATGTCGTCTTCAATGCTGCCCATATGCTCAGACAAGCAAGCCTCAATGAAGCCGCTGAGAAGTATTACGATCTGGCAGCAAGACTGAGACCTAAT

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TCGTCTTCAATGCTGCCCAT

60.04

GCAGGGATGTGATCGGTCTT

59.82

180

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

CCTCAATGAAGCCGCTGAGA

60.11

GCAGGGATGTGATCGGTCTT

59.82

143

PCR template sequence:

GTTCGATGTCGTCTTCAATGCTGCCCATATGCTCAGACAAGCAAGCCTCAATGAAGCCGCTGAGAAGTATTACGATCTGGCAGCAAGACTGAGACCTAATGTGAAGCCTACATGAGACTGAGTAAGCTTCCTGAAGCTGAGCATTGGTACATGGAATCACTGAGATCCAAGACCGATCACATCCCTGCTCATCTCACCTA

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

8

Interacting miRNAs (#binding sites)

mmu-miR-9-5p(1), mmu-miR-103-3p(1), mmu-miR-431-5p(1), mmu-miR-411-3p(1), mmu-miR-107-3p(1), mmu-miR-539-5p(1), mmu-miR-452-3p(1), mmu-miR-344-3p(1)

siRNAs for circular RNA silencing
Junction sequence

ACTGAGACCTAATGTGAAGCCTACAT

siRNA sets

ATGTAGGCTTCACATTAGG, TGTAGGCTTCACATTAGGT, CTTCACATTAGGTCTCAGT

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCTMTC2_383_ORF_1

1.0786

0.289943713

0.673258931

387

ORF sequence:

ATGAGACTGAGTAAGCTTCCTGAAGCTGAGCATTGGTACATGGAATCACTGAGATCCAAGACCGATCACATCCCTGCTCATCTCACCTACGGGAAGCTGCTCGCCTTAACAGGTCGTAAGAGTGAGGCTGAAAAGTTCTTCTTGAAGGCTATTGAGCTGGATCCTACCAAAGGAAACTGTTACATGCACTATGGTCAGTTTCTCCTAGAAGAGTCTCGCCTCACAGAAGCAGCAGAGATGGCAAAGAAAGCAGCTGAGCTGGACAACACAGAGTTCGATGTCGTCTTCAATGCTGCCCATATGCTCAGACAAGCAAGCCTCAATGAAGCCGCTGAGAAGTATTACGATCTGGCAGCAAGACTGAGACCTAATGTGAAGCCTACATGA

Peptide sequence:

MRLSKLPEAEHWYMESLRSKTDHIPAHLTYGKLLALTGRKSEAEKFFLKAIELDPTKGNCYMHYGQFLLEESRLTEAAEMAKKAAELDNTEFDVVFNAAHMLRQASLNEAAEKYYDLAARLRPNVKPT

IRESfinder result

IRESfinder score

0.418297896

IRES/non IRES

non-IRES

riboCIRC information

riboCIRC ID

NA

NA

Evidence
Peptide sequence:

NA

logo.png

Institute of Life sciences, Bhubaneswar, India

bottom of page