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mmu_circArhgef7_698
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef7_698
mm39_Chr. Position ID:
chr8|11831154|11850868|+
Gene name:
Arhgef7
Transcript:
ENSMUST00000110909.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
3,4,5,6,7,8
Exon/intron offsets:
0,1370,4558,10301,19305,19618
Genomic length:
19714
Exon/intron sizes in nt:
85,131,202,89,95,96
Flanking exon/introns:
chr8:11808517-11831154|chr8:11850868-11855200
Splice length:
698
Other database IDs:
circAtlas: mmu-Arhgef7_0001
circBase: hsa_circ_0002680, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_10086
Human Ortholog IDs:
Mature spliced Sequence:
ACTTTTGATGCAAATGATTTGTATCAGGGGCAGAACTTTAACAAGGTCCTCAGCTCCTTGGTGACACTAAATAAAGTGACAGCAGACATTGGACTAGGAAGTGATTCTGTGTGTGCTCGGCCTTCGTCCCATCGGATAAAGTCTTTTGATTCCCTGGGATCCCAGTCTTCACACAGTAGGACTTCAAAATTGCTTCAGAGCCAGTACCGAAGCTTGGACATGACTGATAACACCAACAGCCAACTGGTAGTACGAGCCAAGTTTAACTTCCAGCAGACCAATGAAGATGAACTCTCCTTCTCAAAGGGTGATGTCATCCATGTCACACGAGTGGAGGAAGGAGGCTGGTGGGAGGGCACACACAATGGCAGGACCGGCTGGTTCCCCAGCAACTACGTTCGAGAGATCAAGCCAAGTGAGAAGCCCGTGTCACCCAAATCAGGGACCTTGAAGAGCCCTCCCAAAGGGTTCGATACGACTGCCATCAACAAGAGCTATTACAACGTGGTGCTACAGAACATCCTGGAAACAGAGCATGAGTATTCCAAGGAGCTGCAGTCTGTGCTGTCCACCTACCTGCGGCCACTGCAGACCAGTGACAAGTTGAGTTCAGCAAACACTTCATATTTAATGGGAAATCTAGAGGAAATATCTTCCTTCCAGCAAGTGCTTGTACAGTCCCTAGAAGAATGCACGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTTCCTTCCAGCAAGTGC
58.17
AGTCCAATGTCTGCTGTCACT
59.3
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGTTGAGTTCAGCAAACACT
59.24
GTCACCAAGGAGCTGAGGAC
60.04
165
PCR template sequence:
ACAAGTTGAGTTCAGCAAACACTTCATATTTAATGGGAAATCTAGAGGAAATATCTTCCTTCCAGCAAGTGCTTGTACAGTCCCTAGAAGAATGCACGAAACTTTTGATGCAAATGATTTGTATCAGGGGCAGAACTTTAACAAGGTCCTCAGCTCCTTGGTGACACTAAATAAAGTGACAGCAGACATTGGACTAGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-670-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAATGCACGAAACTTTTGATGCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF7_698_ORF_1
0.8674
0.292834314
0.932269034
705
ORF sequence:
ATGCACGAAACTTTTGATGCAAATGATTTGTATCAGGGGCAGAACTTTAACAAGGTCCTCAGCTCCTTGGTGACACTAAATAAAGTGACAGCAGACATTGGACTAGGAAGTGATTCTGTGTGTGCTCGGCCTTCGTCCCATCGGATAAAGTCTTTTGATTCCCTGGGATCCCAGTCTTCACACAGTAGGACTTCAAAATTGCTTCAGAGCCAGTACCGAAGCTTGGACATGACTGATAACACCAACAGCCAACTGGTAGTACGAGCCAAGTTTAACTTCCAGCAGACCAATGAAGATGAACTCTCCTTCTCAAAGGGTGATGTCATCCATGTCACACGAGTGGAGGAAGGAGGCTGGTGGGAGGGCACACACAATGGCAGGACCGGCTGGTTCCCCAGCAACTACGTTCGAGAGATCAAGCCAAGTGAGAAGCCCGTGTCACCCAAATCAGGGACCTTGAAGAGCCCTCCCAAAGGGTTCGATACGACTGCCATCAACAAGAGCTATTACAACGTGGTGCTACAGAACATCCTGGAAACAGAGCATGAGTATTCCAAGGAGCTGCAGTCTGTGCTGTCCACCTACCTGCGGCCACTGCAGACCAGTGACAAGTTGAGTTCAGCAAACACTTCATATTTAATGGGAAATCTAGAGGAAATATCTTCCTTCCAGCAAGTGCTTGTACAGTCCCTAGAAGAATGCACG
Peptide sequence:
MHETFDANDLYQGQNFNKVLSSLVTLNKVTADIGLGSDSVCARPSSHRIKSFDSLGSQSSHSRTSKLLQSQYRSLDMTDNTNSQLVVRAKFNFQQTNEDELSFSKGDVIHVTRVEEGGWWEGTHNGRTGWFPSNYVREIKPSEKPVSPKSGTLKSPPKGFDTTAINKSYYNVVLQNILETEHEYSKELQSVLSTYLRPLQTSDKLSSANTSYLMGNLEEISSFQQVLVQSLEECT
IRESfinder result
IRESfinder score
0.571291469
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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