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mmu_circArhgap6_992
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap6_992
mm39_Chr. Position ID:
chrX|168029517|168048598|+
Gene name:
Arhgap6
Transcript:
ENSMUST00000033721.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,1994,7056,9964,11130,18901
Genomic length:
19081
Exon/intron sizes in nt:
26,01,96,56,15,11,49,100
Flanking exon/introns:
chrX:168020557-168029517|chrX:168048598-168064956
Splice length:
992
Other database IDs:
CIRCpedia: MMU_CIRCpedia_11754, circAtlas: mmu-Arhgap6_0001
circBase: hsa_circ_0139602, circAtlas: hsa-ARHGAP6_0004, CIRCpedia: HSA_CIRCpedia_94302
Human Ortholog IDs:
Mature spliced Sequence:
AATTCATCCCACAGGCATTTGGAATGCCCTTATCCCAAGTCATTGCTAATGACCGGGCATATAAACTGAAGCAAGACTTGCAGAGGGAGGAGCAGAAGGATGCATCATCGGATTTTGTGTCTTCCCTCCTCCCATTTGGGAATAAAAAACAAAACAAAGAACTCTCAAGCAGTAACTCATCTCTCAGCTCAACCTCAGAAACACCAAATGAGTCTACATCACCGAATACTCCAGAACCAGCTCCTCGGGCCAGGAGAAGGGGCGCCATGTCCGTGGATTCCATCACTGATCTGGATGACAACCAGTCTCGACTCCTAGAAGCTTTACAACTCTCCTTGCCTGCTGAGGCTCAGAGTAAAAAAGAAAAGGCCAGAGATAAGAAGCTGAGTCTGAATCCTATTTACAGGCAGGTCCCCAGGCTGGTGGACAGCTGCTGTCAACATCTGGAAAAACATGGCCTCCAGACAGTGGGGATATTCCGAGTTGGAAGCTCAAAGAAGAGAGTAAGACAATTGCGTGAAGAATTTGACCGTGGGGTTGATGTCTGTCTGGAAGAGGAGCATAGTGTTCACGATGTGGCAGCCTTGTTAAAGGAGTTCCTTAGAGACATGCCTGACCCCCTTCTCACAAGGGAGCTATACACTGCATTTATCAACACTCTCCTGTTGGAGCCTGAGGAACAACTGGGCACCTTGCAACTCCTCATTTACCTTCTACCTCCCTGCAACTGCGACACCCTCCACCGCCTCCTACAGTTCCTCTCCATTGTGGCCAGGCATGCTGATGATAATGTCAGCAAAGATGGACAAGAGGTTACTGGGAACAAAATGACATCTCTGAACTTAGCCACTATATTTGGACCCAACCTGCTCCACAAGCAGAAGTCATCAGACAAAGAATATTCTGTTCAGAGCTCAGCCAGAGCTGAGGAGAGCACAGCCATCATAGCTGTGGTACAGAAGATGATTGAAAATTATGAAGCCTTGTTCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAGCTGAGGAGAGCACAG
59.83
TCCTTCTGCTCCTCCCTCTG
60.33
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGAGGAGAGCACAGCCATC
60.18
TCCTTCTGCTCCTCCCTCTG
60.33
168
PCR template sequence:
CAAAGAATATTCTGTTCAGAGCTCAGCCAGAGCTGAGGAGAGCACAGCCATCATAGCTGTGGTACAGAAGATGATTGAAAATTATGAAGCCTTGTTCATGAATTCATCCCACAGGCATTTGGAATGCCCTTATCCCAAGTCATTGCTAATGACCGGGCATATAAACTGAAGCAAGACTTGCAGAGGGAGGAGCAGAAGGA
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-miR-1904(2), 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)
siRNAs for circular RNA silencing
Junction sequence
AGCCTTGTTCATGAATTCATCCCACA
siRNA sets
GATGAATTCATGAACAAGG,TGAATTCATGAACAAGGCT,ATGAATTCATGAACAAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP6_992_ORF_1
0.9141
0.149306341
0.98913637
1038
ORF sequence:
ATGCCCTTATCCCAAGTCATTGCTAATGACCGGGCATATAAACTGAAGCAAGACTTGCAGAGGGAGGAGCAGAAGGATGCATCATCGGATTTTGTGTCTTCCCTCCTCCCATTTGGGAATAAAAAACAAAACAAAGAACTCTCAAGCAGTAACTCATCTCTCAGCTCAACCTCAGAAACACCAAATGAGTCTACATCACCGAATACTCCAGAACCAGCTCCTCGGGCCAGGAGAAGGGGCGCCATGTCCGTGGATTCCATCACTGATCTGGATGACAACCAGTCTCGACTCCTAGAAGCTTTACAACTCTCCTTGCCTGCTGAGGCTCAGAGTAAAAAAGAAAAGGCCAGAGATAAGAAGCTGAGTCTGAATCCTATTTACAGGCAGGTCCCCAGGCTGGTGGACAGCTGCTGTCAACATCTGGAAAAACATGGCCTCCAGACAGTGGGGATATTCCGAGTTGGAAGCTCAAAGAAGAGAGTAAGACAATTGCGTGAAGAATTTGACCGTGGGGTTGATGTCTGTCTGGAAGAGGAGCATAGTGTTCACGATGTGGCAGCCTTGTTAAAGGAGTTCCTTAGAGACATGCCTGACCCCCTTCTCACAAGGGAGCTATACACTGCATTTATCAACACTCTCCTGTTGGAGCCTGAGGAACAACTGGGCACCTTGCAACTCCTCATTTACCTTCTACCTCCCTGCAACTGCGACACCCTCCACCGCCTCCTACAGTTCCTCTCCATTGTGGCCAGGCATGCTGATGATAATGTCAGCAAAGATGGACAAGAGGTTACTGGGAACAAAATGACATCTCTGAACTTAGCCACTATATTTGGACCCAACCTGCTCCACAAGCAGAAGTCATCAGACAAAGAATATTCTGTTCAGAGCTCAGCCAGAGCTGAGGAGAGCACAGCCATCATAGCTGTGGTACAGAAGATGATTGAAAATTATGAAGCCTTGTTCATGAATTCATCCCACAGGCATTTGGAATGCCCTTATCCCAAGTCATTGCTAATGACCGGGCATATAAACTGA
Peptide sequence:
MPLSQVIANDRAYKLKQDLQREEQKDASSDFVSSLLPFGNKKQNKELSSSNSSLSSTSETPNESTSPNTPEPAPRARRRGAMSVDSITDLDDNQSRLLEALQLSLPAEAQSKKEKARDKKLSLNPIYRQVPRLVDSCCQHLEKHGLQTVGIFRVGSSKKRVRQLREEFDRGVDVCLEEEHSVHDVAALLKEFLRDMPDPLLTRELYTAFINTLLLEPEEQLGTLQLLIYLLPPCNCDTLHRLLQFLSIVARHADDNVSKDGQEVTGNKMTSLNLATIFGPNLLHKQKSSDKEYSVQSSARAEESTAIIAVVQKMIENYEALFMNSSHRHLECPYPKSLLMTGHIN
IRESfinder result
IRESfinder score
0.499257833
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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