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mmu_circ4932438A13Rik_401
Basic information of circular RNA
PanCircBase ID:
mmu_circ4932438A13Rik_401
mm39_Chr. Position ID:
chr3|36994901|36996612|+
Gene name:
4932438A13Rik
Transcript:
ENSMUST00000057272.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
25,26
Exon/intron offsets:
0,1430
Genomic length:
1711
Exon/intron sizes in nt:
120,281
Flanking exon/introns:
chr3:36992723-36994901|chr3:36996612-36997267
Splice length:
401
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213196, circAtlas: mmu-4932438A13Rik_0027
Human Ortholog IDs:
Mature spliced Sequence:
TTGAGTTGTATTCCTGGGCCTTGTCCAACATCAGATGATTTAAAATACACCATGACTCGTTTAGCAATAGATGGATCTGATATTTATATTGTGGAACATGGTTGTGCTACAAATATAAAGATGGGTGCAGTTCGAATTGCAAACTGTAATCTTCACAATCAGTCAGTCGGGGAAGGAATAAGTGCTGCAATTCAGGACTTTCAAGTGAGACAGTATATTGAGCAATTAAATAACTGCAGGATTGGACTTCAGCCAGCAGTGCTGCGCAGAGCCTACTGGCTGGAAGCTGGATCAGCCAACTTAGGTCTTATTACAGTTGATATTGCATTAGCTGCCGATCATCATTCTAAACACGAGGCACAGAGACATTTCTTGGAAACTCATGATGCCAGAACTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATTAGCTGCCGATCATCA
58.48
TGCTAAACGAGTCATGGTGT
57.17
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATTAGCTGCCGATCATCA
58.48
TTGCTAAACGAGTCATGGTGT
57.88
144
PCR template sequence:
TAGGTCTTATTACAGTTGATATTGCATTAGCTGCCGATCATCATTCTAAACACGAGGCACAGAGACATTTCTTGGAAACTCATGATGCCAGAACTAAAAGTTGAGTTGTATTCCTGGGCCTTGTCCAACATCAGATGATTTAAAATACACCATGACTCGTTTAGCAATAGATGGATCTGATATTTATATTGTGGAACATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGAACTAAAAGTTGAGTTGTATTC
siRNA sets
ATACAACTCAACTTTTAGT, ACTCAACTTTTAGTTCTGG, TACAACTCAACTTTTAGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4932438A13RIK_401_ORF_1
1.0473
-0.027047448
0.295202461
354
ORF sequence:
ATGACTCGTTTAGCAATAGATGGATCTGATATTTATATTGTGGAACATGGTTGTGCTACAAATATAAAGATGGGTGCAGTTCGAATTGCAAACTGTAATCTTCACAATCAGTCAGTCGGGGAAGGAATAAGTGCTGCAATTCAGGACTTTCAAGTGAGACAGTATATTGAGCAATTAAATAACTGCAGGATTGGACTTCAGCCAGCAGTGCTGCGCAGAGCCTACTGGCTGGAAGCTGGATCAGCCAACTTAGGTCTTATTACAGTTGATATTGCATTAGCTGCCGATCATCATTCTAAACACGAGGCACAGAGACATTTCTTGGAAACTCATGATGCCAGAACTAAAAGTTGA
Peptide sequence:
MTRLAIDGSDIYIVEHGCATNIKMGAVRIANCNLHNQSVGEGISAAIQDFQVRQYIEQLNNCRIGLQPAVLRRAYWLEAGSANLGLITVDIALAADHHSKHEAQRHFLETHDARTKS
IRESfinder result
IRESfinder score
0.626988385
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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