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mmu_circArnt2_846
Basic information of circular RNA
PanCircBase ID:
mmu_circArnt2_846
mm39_Chr. Position ID:
chr7|83954004|84010876|-
Gene name:
Arnt2
Transcript:
ENSMUST00000085077.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,397,6076,38945,42545,49723,56757
Genomic length:
56872
Exon/intron sizes in nt:
8,66,61,03,21,42,14,48,000
Flanking exon/introns:
chr7:83935058-83954004|chr7:84010876-84059062
Splice length:
846
Other database IDs:
circAtlas: mmu-Arnt2_0005
circBase: hsa_circ_0104669, circAtlas: hsa-ARNT2_0004, CIRCpedia: HSA_CIRCpedia_144327
Human Ortholog IDs:
Mature spliced Sequence:
AGATGGCGTCAGACATACCAGGATCTGTGGCCTTGCCTGTTGCCCCCATGGCAGCCACCGGACAGGTGAGAATGGCAGGGGCCATGCCTGCCCGAGGAGGAAAGCGTCGATCCGGAATGGACTTCGATGACGAAGATGGTGAAGGTCCCAGTAAATTCTCAAGAGAGAACCACAGTGAGATTGAGCGGCGCAGGCGGAACAAGATGACTCAATATATTACGGAACTCTCCGACATGGTTCCCACCTGCAGTGCACTGGCTAGGAAGCCAGACAAGCTGACCATCCTGCGCATGGCGGTCTCGCACATGAAGTCCATGAGGGGCACCGGCAACAAATCGACTGACGGCGCCTACAAGCCTTCCTTCCTCACTGAGCAGGAACTGAAGCATCTCATCCTGGAAGCCGCTGATGGATTTCTGTTTGTGGTGGCAGCTGAGACAGGGAGAGTCATCTACGTGTCTGATTCGGTCACTCCTGTCCTGAACCAGCCACAGTCAGAGTGGTTTGGGAGCACGCTTTATGAGCAGGTGCACCCTGATGACGTGGAGAAACTGAGGGAACAGCTGTGCACTTCGGAAAACTCCATGACAGGCCGCATCCTGGACCTGAAGACTGGGACAGTGAAGAAGGAGGGACAGCAGTCATCCATGCGCATGTGTATGGGCTCTCGGCGCTCCTTCATCTGTAGGATGAGGTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGAACAGAATAACCACCATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCCCTGTGAAAGAAGGAG
59.6
CCTGCCATTCTCACCTGTCC
60.39
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCCCTGTGAAAGAAGGAG
59.6
CCCTGCCATTCTCACCTGTC
60.39
157
PCR template sequence:
AGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCAGAGATGGCGTCAGACATACCAGGATCTGTGGCCTTGCCTGTTGCCCCCATGGCAGCCACCGGACAGGTGAGAATGGCAGGGGCCATGCCTGCCCGAGGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-22-3p(1), mmu-miR-411-3p(1), mmu-miR-207(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCCACCAGCAGAGATGGCGTCAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARNT2_846_ORF_1
1.0625
0.375855521
0.99997012
1689
ORF sequence:
ATGGCGTCAGACATACCAGGATCTGTGGCCTTGCCTGTTGCCCCCATGGCAGCCACCGGACAGGTGAGAATGGCAGGGGCCATGCCTGCCCGAGGAGGAAAGCGTCGATCCGGAATGGACTTCGATGACGAAGATGGTGAAGGTCCCAGTAAATTCTCAAGAGAGAACCACAGTGAGATTGAGCGGCGCAGGCGGAACAAGATGACTCAATATATTACGGAACTCTCCGACATGGTTCCCACCTGCAGTGCACTGGCTAGGAAGCCAGACAAGCTGACCATCCTGCGCATGGCGGTCTCGCACATGAAGTCCATGAGGGGCACCGGCAACAAATCGACTGACGGCGCCTACAAGCCTTCCTTCCTCACTGAGCAGGAACTGAAGCATCTCATCCTGGAAGCCGCTGATGGATTTCTGTTTGTGGTGGCAGCTGAGACAGGGAGAGTCATCTACGTGTCTGATTCGGTCACTCCTGTCCTGAACCAGCCACAGTCAGAGTGGTTTGGGAGCACGCTTTATGAGCAGGTGCACCCTGATGACGTGGAGAAACTGAGGGAACAGCTGTGCACTTCGGAAAACTCCATGACAGGCCGCATCCTGGACCTGAAGACTGGGACAGTGAAGAAGGAGGGACAGCAGTCATCCATGCGCATGTGTATGGGCTCTCGGCGCTCCTTCATCTGTAGGATGAGGTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGAACAGAATAACCACCATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCAGAGATGGCGTCAGACATACCAGGATCTGTGGCCTTGCCTGTTGCCCCCATGGCAGCCACCGGACAGGTGAGAATGGCAGGGGCCATGCCTGCCCGAGGAGGAAAGCGTCGATCCGGAATGGACTTCGATGACGAAGATGGTGAAGGTCCCAGTAAATTCTCAAGAGAGAACCACAGTGAGATTGAGCGGCGCAGGCGGAACAAGATGACTCAATATATTACGGAACTCTCCGACATGGTTCCCACCTGCAGTGCACTGGCTAGGAAGCCAGACAAGCTGACCATCCTGCGCATGGCGGTCTCGCACATGAAGTCCATGAGGGGCACCGGCAACAAATCGACTGACGGCGCCTACAAGCCTTCCTTCCTCACTGAGCAGGAACTGAAGCATCTCATCCTGGAAGCCGCTGATGGATTTCTGTTTGTGGTGGCAGCTGAGACAGGGAGAGTCATCTACGTGTCTGATTCGGTCACTCCTGTCCTGAACCAGCCACAGTCAGAGTGGTTTGGGAGCACGCTTTATGAGCAGGTGCACCCTGATGACGTGGAGAAACTGAGGGAACAGCTGTGCACTTCGGAAAACTCCATGACAGGCCGCATCCTGGACCTGAAGACTGGGACAGTGAAGAAGGAGGGACAGCAGTCATCCATGCGCATGTGTATGGGCTCTCGGCGCTCCTTCATCTGTAGGATGAGGTGTGGAAACGCTCCCTTGGACCACCTGCCTTTGAACAGAATAACCACCATGAGGAAAAGGTTCAGGAATGGCCTTGGCCCTGTGAAAGAAGGAGAAGCCCAGTATGCTGTGGTCCACTGCACAGGTTACATCAAGGCTTGGCCACCAGCA
Peptide sequence:
MASDIPGSVALPVAPMAATGQVRMAGAMPARGGKRRSGMDFDDEDGEGPSKFSRENHSEIERRRRNKMTQYITELSDMVPTCSALARKPDKLTILRMAVSHMKSMRGTGNKSTDGAYKPSFLTEQELKHLILEAADGFLFVVAAETGRVIYVSDSVTPVLNQPQSEWFGSTLYEQVHPDDVEKLREQLCTSENSMTGRILDLKTGTVKKEGQQSSMRMCMGSRRSFICRMRCGNAPLDHLPLNRITTMRKRFRNGLGPVKEGEAQYAVVHCTGYIKAWPPAEMASDIPGSVALPVAPMAATGQVRMAGAMPARGGKRRSGMDFDDEDGEGPSKFSRENHSEIERRRRNKMTQYITELSDMVPTCSALARKPDKLTILRMAVSHMKSMRGTGNKSTDGAYKPSFLTEQELKHLILEAADGFLFVVAAETGRVIYVSDSVTPVLNQPQSEWFGSTLYEQVHPDDVEKLREQLCTSENSMTGRILDLKTGTVKKEGQQSSMRMCMGSRRSFICRMRCGNAPLDHLPLNRITTMRKRFRNGLGPVKEGEAQYAVVHCTGYIKAWPPA
IRESfinder result
IRESfinder score
0.211625594
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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