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mmu_circTrpm7_854
Basic information of circular RNA
PanCircBase ID:
mmu_circTrpm7_854
mm39_Chr. Position ID:
chr2|126661756|126667475|-
Gene name:
Trpm7
Transcript:
ENSMUST00000103224.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
23,22,21,20,19
Exon/intron offsets:
0,1327,2633,4139,5575
Genomic length:
5719
Exon/intron sizes in nt:
12,71,75,27,91,29,144
Flanking exon/introns:
chr2:126658864-126661756|chr2:126667475-126667553
Splice length:
854
Other database IDs:
CIRCpedia: HSA_CIRCpedia_83184
Human Ortholog IDs:
Mature spliced Sequence:
GAAGTATTTAAAGAAGTAAAGATTTTGGACAGCAGTGATGGAAAGAATGAAATGGAGATACATATTAAATCAAAAAAGCTTCCAATCACACGAAAATTTTATGCCTTTTATCATGCACCAATTGTAAAGTTCTGGTTTAACACATTGGCATATTTAGGATTTCTGATGCTTTATACATTTGTAGTTCTTGTAAAAATGGAACAGTTACCTTCAGTTCAAGAATGGATTGTTATCGCTTATATTTTTACCTATGCTATTGAAAAAGTCCGTGAGGTCTTCATGTCTGAAGCTGGGAAAATCAGCCAGAAGATTAAAGTATGGTTTAGTGACTACTTCAATGTCAGTGACACAATTGCCATCATTTCTTTCTTTGTTGGATTTGGACTAAGATTTGGAGCAAAATGGAACTATATTAATGCATATGATAATCATGTTTTTGTGGCTGGAAGATTAATTTACTGTCTTAATATAATATTTTGGTATGTGCGTTTGCTAGACTTTCTAGCCGTAAATCAACAGGCAGGACCTTATGTAATGATGATTGGAAAAATGGTGGCCAATATGTTCTACATTGTAGTGATAATGGCTCTTGTATTGCTTAGTTTTGGTGTTCCCAGAAAAGCAATACTTTATCCACATGAAGAACCATCTTGGTCTCTTGCTAAAGATATAGTTTTTCATCCATACTGGATGATTTTTGGTGAAGTTTATGCATATGAAATTGATGTGTGTGCAAATGACTCCACTCTCCCGACAATCTGTGGTCCTGGAACTTGGTTGACTCCATTTCTTCAAGCAGTCTACCTCTTTGTACAGTATATCATTATGGTTAATCTCCTTATCGCATTTTTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGGTCCTGGAACTTGGT
59.53
TCTTTCCATCACTGCTGTCCA
59.3
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTGGTCCTGGAACTTGG
59.24
TCTTTCCATCACTGCTGTCCA
59.3
143
PCR template sequence:
CAATCTGTGGTCCTGGAACTTGGTTGACTCCATTTCTTCAAGCAGTCTACCTCTTTGTACAGTATATCATTATGGTTAATCTCCTTATCGCATTTTTCAAGAAGTATTTAAAGAAGTAAAGATTTTGGACAGCAGTGATGGAAAGAATGAAATGGAGATACATATTAAATCAAAAAAGCTTCCAATCACACGAAAATTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-miR-335-5p(1), mmu-miR-381-3p(1), mmu-let-7d-5p(1), mmu-miR-136-5p(1), mmu-miR-182-5p(1), mmu-miR-340-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGCATTTTTCAAGAAGTATTTAAAG
siRNA sets
AATACTTCTTGAAAAATGC, TAAATACTTCTTGAAAAAT, ATACTTCTTGAAAAATGCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRPM7_854_ORF_1
0.8138
-0.136355556
0.8326701
822
ORF sequence:
ATGGAGATACATATTAAATCAAAAAAGCTTCCAATCACACGAAAATTTTATGCCTTTTATCATGCACCAATTGTAAAGTTCTGGTTTAACACATTGGCATATTTAGGATTTCTGATGCTTTATACATTTGTAGTTCTTGTAAAAATGGAACAGTTACCTTCAGTTCAAGAATGGATTGTTATCGCTTATATTTTTACCTATGCTATTGAAAAAGTCCGTGAGGTCTTCATGTCTGAAGCTGGGAAAATCAGCCAGAAGATTAAAGTATGGTTTAGTGACTACTTCAATGTCAGTGACACAATTGCCATCATTTCTTTCTTTGTTGGATTTGGACTAAGATTTGGAGCAAAATGGAACTATATTAATGCATATGATAATCATGTTTTTGTGGCTGGAAGATTAATTTACTGTCTTAATATAATATTTTGGTATGTGCGTTTGCTAGACTTTCTAGCCGTAAATCAACAGGCAGGACCTTATGTAATGATGATTGGAAAAATGGTGGCCAATATGTTCTACATTGTAGTGATAATGGCTCTTGTATTGCTTAGTTTTGGTGTTCCCAGAAAAGCAATACTTTATCCACATGAAGAACCATCTTGGTCTCTTGCTAAAGATATAGTTTTTCATCCATACTGGATGATTTTTGGTGAAGTTTATGCATATGAAATTGATGTGTGTGCAAATGACTCCACTCTCCCGACAATCTGTGGTCCTGGAACTTGGTTGACTCCATTTCTTCAAGCAGTCTACCTCTTTGTACAGTATATCATTATGGTTAATCTCCTTATCGCATTTTTCAAGAAGTATTTAAAGAAGTAA
Peptide sequence:
MEIHIKSKKLPITRKFYAFYHAPIVKFWFNTLAYLGFLMLYTFVVLVKMEQLPSVQEWIVIAYIFTYAIEKVREVFMSEAGKISQKIKVWFSDYFNVSDTIAIISFFVGFGLRFGAKWNYINAYDNHVFVAGRLIYCLNIIFWYVRLLDFLAVNQQAGPYVMMIGKMVANMFYIVVIMALVLLSFGVPRKAILYPHEEPSWSLAKDIVFHPYWMIFGEVYAYEIDVCANDSTLPTICGPGTWLTPFLQAVYLFVQYIIMVNLLIAFFKKYLKK
IRESfinder result
IRESfinder score
0.813950275
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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