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mmu_circArhgap6_812
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap6_812
mm39_Chr. Position ID:
chrX|168029517|168040796|+
Gene name:
Arhgap6
Transcript:
ENSMUST00000033721.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,1994,7056,9964,11130
Genomic length:
11279
Exon/intron sizes in nt:
2,60,19,65,61,51,149
Flanking exon/introns:
chrX:168020557-168029517|chrX:168040796-168048418
Splice length:
812
Other database IDs:
circBase: hsa_circ_0139603, circAtlas: hsa-ARHGAP6_0005, CIRCpedia: HSA_CIRCpedia_65031
Human Ortholog IDs:
Mature spliced Sequence:
AATTCATCCCACAGGCATTTGGAATGCCCTTATCCCAAGTCATTGCTAATGACCGGGCATATAAACTGAAGCAAGACTTGCAGAGGGAGGAGCAGAAGGATGCATCATCGGATTTTGTGTCTTCCCTCCTCCCATTTGGGAATAAAAAACAAAACAAAGAACTCTCAAGCAGTAACTCATCTCTCAGCTCAACCTCAGAAACACCAAATGAGTCTACATCACCGAATACTCCAGAACCAGCTCCTCGGGCCAGGAGAAGGGGCGCCATGTCCGTGGATTCCATCACTGATCTGGATGACAACCAGTCTCGACTCCTAGAAGCTTTACAACTCTCCTTGCCTGCTGAGGCTCAGAGTAAAAAAGAAAAGGCCAGAGATAAGAAGCTGAGTCTGAATCCTATTTACAGGCAGGTCCCCAGGCTGGTGGACAGCTGCTGTCAACATCTGGAAAAACATGGCCTCCAGACAGTGGGGATATTCCGAGTTGGAAGCTCAAAGAAGAGAGTAAGACAATTGCGTGAAGAATTTGACCGTGGGGTTGATGTCTGTCTGGAAGAGGAGCATAGTGTTCACGATGTGGCAGCCTTGTTAAAGGAGTTCCTTAGAGACATGCCTGACCCCCTTCTCACAAGGGAGCTATACACTGCATTTATCAACACTCTCCTGTTGGAGCCTGAGGAACAACTGGGCACCTTGCAACTCCTCATTTACCTTCTACCTCCCTGCAACTGCGACACCCTCCACCGCCTCCTACAGTTCCTCTCCATTGTGGCCAGGCATGCTGATGATAATGTCAGCAAAGATGGACAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCCTCTCCATTGTGGCCA
59.96
TCCTTCTGCTCCTCCCTCTG
60.33
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCAGGCATGCTGATGATA
60.25
TCCTTCTGCTCCTCCCTCTG
60.33
143
PCR template sequence:
TCTACCTCCCTGCAACTGCGACACCCTCCACCGCCTCCTACAGTTCCTCTCCATTGTGGCCAGGCATGCTGATGATAATGTCAGCAAAGATGGACAAGAGAATTCATCCCACAGGCATTTGGAATGCCCTTATCCCAAGTCATTGCTAATGACCGGGCATATAAACTGAAGCAAGACTTGCAGAGGGAGGAGCAGAAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-7b-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-143-3p(1), mmu-miR-214-3p(1), mmu-let-7d-5p(1), mmu-miR-98-5p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGATGGACAAGAGAATTCATCCCACA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP6_812_ORF_1
0.882
0.135622366
0.95710833
858
ORF sequence:
ATGCCCTTATCCCAAGTCATTGCTAATGACCGGGCATATAAACTGAAGCAAGACTTGCAGAGGGAGGAGCAGAAGGATGCATCATCGGATTTTGTGTCTTCCCTCCTCCCATTTGGGAATAAAAAACAAAACAAAGAACTCTCAAGCAGTAACTCATCTCTCAGCTCAACCTCAGAAACACCAAATGAGTCTACATCACCGAATACTCCAGAACCAGCTCCTCGGGCCAGGAGAAGGGGCGCCATGTCCGTGGATTCCATCACTGATCTGGATGACAACCAGTCTCGACTCCTAGAAGCTTTACAACTCTCCTTGCCTGCTGAGGCTCAGAGTAAAAAAGAAAAGGCCAGAGATAAGAAGCTGAGTCTGAATCCTATTTACAGGCAGGTCCCCAGGCTGGTGGACAGCTGCTGTCAACATCTGGAAAAACATGGCCTCCAGACAGTGGGGATATTCCGAGTTGGAAGCTCAAAGAAGAGAGTAAGACAATTGCGTGAAGAATTTGACCGTGGGGTTGATGTCTGTCTGGAAGAGGAGCATAGTGTTCACGATGTGGCAGCCTTGTTAAAGGAGTTCCTTAGAGACATGCCTGACCCCCTTCTCACAAGGGAGCTATACACTGCATTTATCAACACTCTCCTGTTGGAGCCTGAGGAACAACTGGGCACCTTGCAACTCCTCATTTACCTTCTACCTCCCTGCAACTGCGACACCCTCCACCGCCTCCTACAGTTCCTCTCCATTGTGGCCAGGCATGCTGATGATAATGTCAGCAAAGATGGACAAGAGAATTCATCCCACAGGCATTTGGAATGCCCTTATCCCAAGTCATTGCTAATGACCGGGCATATAAACTGA
Peptide sequence:
MPLSQVIANDRAYKLKQDLQREEQKDASSDFVSSLLPFGNKKQNKELSSSNSSLSSTSETPNESTSPNTPEPAPRARRRGAMSVDSITDLDDNQSRLLEALQLSLPAEAQSKKEKARDKKLSLNPIYRQVPRLVDSCCQHLEKHGLQTVGIFRVGSSKKRVRQLREEFDRGVDVCLEEEHSVHDVAALLKEFLRDMPDPLLTRELYTAFINTLLLEPEEQLGTLQLLIYLLPPCNCDTLHRLLQFLSIVARHADDNVSKDGQENSSHRHLECPYPKSLLMTGHIN
IRESfinder result
IRESfinder score
0.466454027
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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