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mmu_circTtyh2_390

Basic information of circular RNA
PanCircBase ID:

mmu_circTtyh2_390

mm39_Chr. Position ID:

chr11|114587414|114593134|+

Gene name:

Ttyh2

Transcript:

ENSMUST00000045779.6

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

3

Exon/intron indexes:

4,5,6

Exon/intron offsets:

0,5192,5647

Genomic length:

5720

Exon/intron sizes in nt:

221,96,73

Flanking exon/introns:

chr11:114581176-114587414|chr11:114593134-114598161

Splice length:

390

Other database IDs:

circAtlas: mmu-Ttyh2_0011

Human Ortholog IDs:
Mature spliced Sequence:

GTGTCTGCAAACACCCAGAGGATGAAGGTAGACCTAGAACAGCACCTGGCCCGGCTCAGCGAGATCATTGCTGCCCGGGGTGACTACATCCAGACCCTGAAGTTTATGCAACAGATGGCAGGCAATGTCGTCAGCCAGCTCTCGGGGCTGCCCGTGTGGAGGGAGGTCACCACGCAGCTGACCAAGCTGTCCCACCAGACTGCCTATGTGGAATACTACAGGTGGCTGTCCTACCTCCTGCTTTTCATCCTTGACCTGGTCATCTGCCTTGTCACCTGCCTGGGACTGGCCAGGCGGTCCAAGTGTCTCCTAGCCTCCATGCTGTGCTGTGGAATACTGACCCTGATCCTCAGCTGGGCTTCTCTGGCTGCTGATGCTGCTGCAGCAGTG

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TCTCCTAGCCTCCATGCTGT

60.03

GTCTGGATGTAGTCACCCCG

59.54

180

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TCCATGCTGTGCTGTGGAAT

59.96

GTCTGGATGTAGTCACCCCG

59.54

170

PCR template sequence:

CAGGCGGTCCAAGTGTCTCCTAGCCTCCATGCTGTGCTGTGGAATACTGACCCTGATCCTCAGCTGGGCTTCTCTGGCTGCTGATGCTGCTGCAGCAGTGGTGTCTGCAAACACCCAGAGGATGAAGGTAGACCTAGAACAGCACCTGGCCCGGCTCAGCGAGATCATTGCTGCCCGGGGTGACTACATCCAGACCCTGA

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

6

Interacting miRNAs (#binding sites)

mmu-miR-103-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-205-5p(1), mmu-let-7c-5p(1), mmu-miR-107-3p(1)

siRNAs for circular RNA silencing
Junction sequence

TGCTGCAGCAGTGGTGTCTGCAAACA

siRNA sets

NA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCTTYH2_390_ORF_1

1.323

0.373204693

0.985255663

759

ORF sequence:

ATGAAGGTAGACCTAGAACAGCACCTGGCCCGGCTCAGCGAGATCATTGCTGCCCGGGGTGACTACATCCAGACCCTGAAGTTTATGCAACAGATGGCAGGCAATGTCGTCAGCCAGCTCTCGGGGCTGCCCGTGTGGAGGGAGGTCACCACGCAGCTGACCAAGCTGTCCCACCAGACTGCCTATGTGGAATACTACAGGTGGCTGTCCTACCTCCTGCTTTTCATCCTTGACCTGGTCATCTGCCTTGTCACCTGCCTGGGACTGGCCAGGCGGTCCAAGTGTCTCCTAGCCTCCATGCTGTGCTGTGGAATACTGACCCTGATCCTCAGCTGGGCTTCTCTGGCTGCTGATGCTGCTGCAGCAGTGGTGTCTGCAAACACCCAGAGGATGAAGGTAGACCTAGAACAGCACCTGGCCCGGCTCAGCGAGATCATTGCTGCCCGGGGTGACTACATCCAGACCCTGAAGTTTATGCAACAGATGGCAGGCAATGTCGTCAGCCAGCTCTCGGGGCTGCCCGTGTGGAGGGAGGTCACCACGCAGCTGACCAAGCTGTCCCACCAGACTGCCTATGTGGAATACTACAGGTGGCTGTCCTACCTCCTGCTTTTCATCCTTGACCTGGTCATCTGCCTTGTCACCTGCCTGGGACTGGCCAGGCGGTCCAAGTGTCTCCTAGCCTCCATGCTGTGCTGTGGAATACTGACCCTGATCCTCAGCTGGGCTTCTCTGGCTGCTGATGCTGCTGCAGCAGTG

Peptide sequence:

MKVDLEQHLARLSEIIAARGDYIQTLKFMQQMAGNVVSQLSGLPVWREVTTQLTKLSHQTAYVEYYRWLSYLLLFILDLVICLVTCLGLARRSKCLLASMLCCGILTLILSWASLAADAAAAVVSANTQRMKVDLEQHLARLSEIIAARGDYIQTLKFMQQMAGNVVSQLSGLPVWREVTTQLTKLSHQTAYVEYYRWLSYLLLFILDLVICLVTCLGLARRSKCLLASMLCCGILTLILSWASLAADAAAAV

IRESfinder result

IRESfinder score

0.460346911

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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