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mmu_circTcf7l2_236

Basic information of circular RNA
PanCircBase ID:

mmu_circTcf7l2_236

mm39_Chr. Position ID:

chr19|55896854|55899113|+

Gene name:

Tcf7l2

Transcript:

ENSMUST00000111662.11

CircRNA type:

Exonic circular (circ)RNA

Exon/Intron count:

2

Exon/intron indexes:

5,6

Exon/intron offsets:

0,2156

Genomic length:

2259

Exon/intron sizes in nt:

1,33,103

Flanking exon/introns:

chr19:55806297-55896854|chr19:55899113-55900990

Splice length:

236

Other database IDs:

CIRCpedia: MMU_CIRCpedia_23368, circAtlas: mmu-Tcf7l2_0003

circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_173490

Human Ortholog IDs:
Mature spliced Sequence:

TCGAACAAAGTACCGGTGGTGCAACACCCCCACCATGTCCACCCACTCACGCCTCTCATCACGTACAGCAATGAACACTTCACCCCGGGAAATCCACCTCCGCACTTACCAGCTGACGTAGACCCCAAAACAGGAATCCCAAGGCCTCCGCACCCTCCAGATATCTCTCCATATTACCCGCTGTCGCCCGGCACCGTAGGACAAATCCCCCATCCGCTAGGATGGTTAGTACCACA

Divergent primers for circular RNA PCR

Primer Set-1

Forward primer
Tm
Reverse primer
Tm
Product size

TCCATATTACCCGCTGTCGC

59.97

GATTTCCCGGGGTGAAGTGT

59.96

163

Primer Set-2

Forward primer
Tm
Reverse primer
Tm
Product size

TCCATATTACCCGCTGTCGC

59.97

TTTCCCGGGGTGAAGTGTTC

60.18

161

PCR template sequence:

TCCCAAGGCCTCCGCACCCTCCAGATATCTCTCCATATTACCCGCTGTCGCCCGGCACCGTAGGACAAATCCCCCATCCGCTAGGATGGTTAGTACCACATCGAACAAAGTACCGGTGGTGCAACACCCCCACCATGTCCACCCACTCACGCCTCTCATCACGTACAGCAATGAACACTTCACCCCGGGAAATCCACCTC

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

NA

Interacting miRNAs (#binding sites)

NA

siRNAs for circular RNA silencing
Junction sequence

GGTTAGTACCACATCGAACAAAGTAC

siRNA sets

GTTCGATGTGGTACTAACC, GTACTTTGTTCGATGTGGT, TACTTTGTTCGATGTGGTA

Protein-coding potential of circular RNAs

CPAT analysis

CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length

CIRCTCF7L2_236_ORF_1

1.029

0.147388561

0.280677528

249

ORF sequence:

ATGGTTAGTACCACATCGAACAAAGTACCGGTGGTGCAACACCCCCACCATGTCCACCCACTCACGCCTCTCATCACGTACAGCAATGAACACTTCACCCCGGGAAATCCACCTCCGCACTTACCAGCTGACGTAGACCCCAAAACAGGAATCCCAAGGCCTCCGCACCCTCCAGATATCTCTCCATATTACCCGCTGTCGCCCGGCACCGTAGGACAAATCCCCCATCCGCTAGGATGGTTAGTACCA

Peptide sequence:

MVSTTSNKVPVVQHPHHVHPLTPLITYSNEHFTPGNPPPHLPADVDPKTGIPRPPHPPDISPYYPLSPGTVGQIPHPLGWLVP

IRESfinder result

IRESfinder score

0.503526528

IRES/non IRES

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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