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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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