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mmu_circNploc4_895
Basic information of circular RNA
PanCircBase ID:
mmu_circNploc4_895
mm39_Chr. Position ID:
chr11|120295031|120309943|-
Gene name:
Nploc4
Transcript:
ENSMUST00000044271.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
12,11,10,9,8,7,6,5
Exon/intron offsets:
0,4567,5406,7452,9354,12051,14039,14863
Genomic length:
14912
Exon/intron sizes in nt:
161,127,72,87,180,124,95,49
Flanking exon/introns:
chr11:120280265-120295031|chr11:120309943-120312190
Splice length:
895
Other database IDs:
circBase: hsa_circ_0046189, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_80123
Human Ortholog IDs:
Mature spliced Sequence:
ATGCCGCCATGGTCCCTTGGGCAAGTGTGTGCATTGTGTCCCACTGGAGCCATTTGATGAGGACTATCTGAACCACTTGGAGCCTCCTGTGAAGCACATGTCCTTCCATGCCTACATCCGGAAGCTGACTGGAGGGGCTGACAAGGGTAAGTTTGTTGCCCTGGAGAACATCAGCTGCAAGATTAAGTCAGGGTGTGAGGGACACCTCCCATGGCCAAATGGTATCTGCACCAAATGCCAGCCCAGTGCCATCACGCTGAACAGACAGAAATACCGACACGTGGACAACATCATGTTTGAGAATCATACTGTTGCTGACCGCTTCCTTGACTTCTGGAGAAAGACCGGAAACCAGCATTTTGGGTACTTATACGGACGGTACACAGAGCACAAGGACATTCCCCTCGGCATCAGGGCTGAAGTGGCTGCAATTTACGAGCCTCCTCAGATTGGTACACAGAACAGTCTGGAGCTTCTGGAAGACCCGAAAGCTGAGGTGGTTGACGAGATTGCCGCCAAACTTGGCCTGAGGAAGGTTGGATGGATATTCACGGACCTTGTCTCAGAAGACACCCGAAAGGGTACAGTCCGATACAGTCGGAATAAGGACACCTATTTCCTGAGTTCAGAAGAATGCATCACTGCAGGAGACTTTCAAAACAAGCACCCCAACATTTGCCGGCTCTCTCCCGATGGTCATTTTGGATCCAAGTTTGTTACTGCAGTGGCCACAGGTGGTCCTGACAACCAGGTTCACTTTGAAGGGTACCAGGTATCCAATCAGTGCATGGCACTAGTCCGAGATGAGTGTCTTCTACCTTGTAAGGATGCCCCTGAGCTTGGCTATGCTAAGGAGTCCAGCAGTGAGCAGTATGTTCCTGATGTGTTTTATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTAAGGAGTCCAGCAGTG
59.39
TTCACAGGAGGCTCCAAGTG
59.6
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTGAGCTTGGCTATGCTA
59.24
GGAGGCTCCAAGTGGTTCAG
60.32
151
PCR template sequence:
AGTCCGAGATGAGTGTCTTCTACCTTGTAAGGATGCCCCTGAGCTTGGCTATGCTAAGGAGTCCAGCAGTGAGCAGTATGTTCCTGATGTGTTTTATAAGATGCCGCCATGGTCCCTTGGGCAAGTGTGTGCATTGTGTCCCACTGGAGCCATTTGATGAGGACTATCTGAACCACTTGGAGCCTCCTGTGAAGCACATG
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-495-3p(1), mmu-miR-183-5p(1), mmu-miR-342-5p(1), mmu-miR-802-5p(1), mmu-miR-3065-5p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGTTTTATAAGATGCCGCCATGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNPLOC4_895_ORF_1
1.0797
0.271823994
0.993013732
987
ORF sequence:
ATGAGTGTCTTCTACCTTGTAAGGATGCCCCTGAGCTTGGCTATGCTAAGGAGTCCAGCAGTGAGCAGTATGTTCCTGATGTGTTTTATAAGATGCCGCCATGGTCCCTTGGGCAAGTGTGTGCATTGTGTCCCACTGGAGCCATTTGATGAGGACTATCTGAACCACTTGGAGCCTCCTGTGAAGCACATGTCCTTCCATGCCTACATCCGGAAGCTGACTGGAGGGGCTGACAAGGGTAAGTTTGTTGCCCTGGAGAACATCAGCTGCAAGATTAAGTCAGGGTGTGAGGGACACCTCCCATGGCCAAATGGTATCTGCACCAAATGCCAGCCCAGTGCCATCACGCTGAACAGACAGAAATACCGACACGTGGACAACATCATGTTTGAGAATCATACTGTTGCTGACCGCTTCCTTGACTTCTGGAGAAAGACCGGAAACCAGCATTTTGGGTACTTATACGGACGGTACACAGAGCACAAGGACATTCCCCTCGGCATCAGGGCTGAAGTGGCTGCAATTTACGAGCCTCCTCAGATTGGTACACAGAACAGTCTGGAGCTTCTGGAAGACCCGAAAGCTGAGGTGGTTGACGAGATTGCCGCCAAACTTGGCCTGAGGAAGGTTGGATGGATATTCACGGACCTTGTCTCAGAAGACACCCGAAAGGGTACAGTCCGATACAGTCGGAATAAGGACACCTATTTCCTGAGTTCAGAAGAATGCATCACTGCAGGAGACTTTCAAAACAAGCACCCCAACATTTGCCGGCTCTCTCCCGATGGTCATTTTGGATCCAAGTTTGTTACTGCAGTGGCCACAGGTGGTCCTGACAACCAGGTTCACTTTGAAGGGTACCAGGTATCCAATCAGTGCATGGCACTAGTCCGAGATGAGTGTCTTCTACCTTGTAAGGATGCCCCTGAGCTTGGCTATGCTAAGGAGTCCAGCAGTGAGCAGTATGTTCCTGATGTGTTTTATAAG
Peptide sequence:
MSVFYLVRMPLSLAMLRSPAVSSMFLMCFIRCRHGPLGKCVHCVPLEPFDEDYLNHLEPPVKHMSFHAYIRKLTGGADKGKFVALENISCKIKSGCEGHLPWPNGICTKCQPSAITLNRQKYRHVDNIMFENHTVADRFLDFWRKTGNQHFGYLYGRYTEHKDIPLGIRAEVAAIYEPPQIGTQNSLELLEDPKAEVVDEIAAKLGLRKVGWIFTDLVSEDTRKGTVRYSRNKDTYFLSSEECITAGDFQNKHPNICRLSPDGHFGSKFVTAVATGGPDNQVHFEGYQVSNQCMALVRDECLLPCKDAPELGYAKESSSEQYVPDVFYK
IRESfinder result
IRESfinder score
0.419504605
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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