top of page
mmu_circRalgapa2_963
Basic information of circular RNA
PanCircBase ID:
mmu_circRalgapa2_963
mm39_Chr. Position ID:
chr2|146285703|146302691|-
Gene name:
Ralgapa2
Transcript:
ENSMUST00000109986.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,9,8,7,6,5,4
Exon/intron offsets:
0,3492,5426,6668,7899,9625,16930
Genomic length:
16988
Exon/intron sizes in nt:
228,200,139,116,178,44,58
Flanking exon/introns:
chr2:146277926-146285703|chr2:146302691-146321296
Splice length:
963
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9675, circAtlas: mmu-Ralgapa2_0006
circAtlas: hsa-RALGAPA2_0120, CIRCpedia: HSA_CIRCpedia_366148
Human Ortholog IDs:
Mature spliced Sequence:
AAAATACTGCAGTTTCTACCTGAACGAATTTTCTTTCGATGGCATTACCAGAGTATAGGCTCAACTTTAAAGAAGCTTTTACACACTGGAAATTCTATTAAGATAAGATGTGAAGGAATCAGACTATTTCTTTTGTGGCTTCAAGCACTTCAGACAAACTGTGCAGAAGAGCAGGTGCTGATTTTCGCTTGCCTAGTGCCTGGTTTCCCAGCGGTCTTGTCATCCAGGGGTCCCTGCACACTGGAGACACTCATCAACCCTAGCCCTAGTATAGTTGATGCAAAAATATACCCAGAGGAAATCACCCCACTTCTGCCAGCCATATCAGGGGAGAAGATTGCTGAGGACCAAACCTGCTTTTTTCTTCAAATACTGTTGAAATACATGGTTATTCAGGCTGCAAGCTTGGAGTGGAAGAATAAAGAGAATCAAGATACTGGTTTTAAATTTCTTTTTACGTTGTTTCGAAAGTATTATCTTCCTCATTTGTTTCCATCATTTACTAAATTAACCAACATCTACAAACCTGTACTTGAAATTCCCCATTTGAGACCAAAGCCAGTATATGTTACTGTAACTCGAGATAATGAAACAATTTACAGTACAAAAATTCCATACATGGCAGCTCGTGTTGTTTTCATTAAATGGATTGTAACTTTCTTTTTGGAAAAAAAGTATCTAACTGCAACACAAAACACTAAAAATGGAGTTGATGTATTGCCTAAAATCATCCAGACTGTTGGTGGTGGTGCAATACAAGAGAAGGTACCAGAGCTGGATGGTGCTGGGTCCACAGAACAGGACAAAAGCCATTCTAACAGCAGCACCTTGTCTGACCGAAGACTCAGCAACTCCAGTCTTTGTAGCATTGAAGAGGAGCATCGGACAGTGTATGAGATGGTGCAGCGGATCCTCCTGTCAACACGGGGTTATGTGAATTTTGTGAATGAAGTATTTCGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGGAGCATCGGACAGTG
59.47
GAGCCTATACTCTGGTAATGCCA
59.42
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGGAGCATCGGACAGTG
59.47
TGAGCCTATACTCTGGTAATGCC
59.42
155
PCR template sequence:
TAGCATTGAAGAGGAGCATCGGACAGTGTATGAGATGGTGCAGCGGATCCTCCTGTCAACACGGGGTTATGTGAATTTTGTGAATGAAGTATTTCGACAGAAAATACTGCAGTTTCTACCTGAACGAATTTTCTTTCGATGGCATTACCAGAGTATAGGCTCAACTTTAAAGAAGCTTTTACACACTGGAAATTCTATTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-92a-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-298-5p(1), mmu-miR-101b-3p(1), mmu-miR-25-3p(1), mmu-miR-136-5p(1), mmu-miR-363-3p(1), mmu-miR-382-3p(1), mmu-miR-22-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-802-5p(1), mmu-miR-1199-5p(1), mmu-miR-350-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTATTTCGACAGAAAATACTGCAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRALGAPA2_963_ORF_1
0.8667
-0.002459849
0.999413733
1542
ORF sequence:
ATGGTTATTCAGGCTGCAAGCTTGGAGTGGAAGAATAAAGAGAATCAAGATACTGGTTTTAAATTTCTTTTTACGTTGTTTCGAAAGTATTATCTTCCTCATTTGTTTCCATCATTTACTAAATTAACCAACATCTACAAACCTGTACTTGAAATTCCCCATTTGAGACCAAAGCCAGTATATGTTACTGTAACTCGAGATAATGAAACAATTTACAGTACAAAAATTCCATACATGGCAGCTCGTGTTGTTTTCATTAAATGGATTGTAACTTTCTTTTTGGAAAAAAAGTATCTAACTGCAACACAAAACACTAAAAATGGAGTTGATGTATTGCCTAAAATCATCCAGACTGTTGGTGGTGGTGCAATACAAGAGAAGGTACCAGAGCTGGATGGTGCTGGGTCCACAGAACAGGACAAAAGCCATTCTAACAGCAGCACCTTGTCTGACCGAAGACTCAGCAACTCCAGTCTTTGTAGCATTGAAGAGGAGCATCGGACAGTGTATGAGATGGTGCAGCGGATCCTCCTGTCAACACGGGGTTATGTGAATTTTGTGAATGAAGTATTTCGACAGAAAATACTGCAGTTTCTACCTGAACGAATTTTCTTTCGATGGCATTACCAGAGTATAGGCTCAACTTTAAAGAAGCTTTTACACACTGGAAATTCTATTAAGATAAGATGTGAAGGAATCAGACTATTTCTTTTGTGGCTTCAAGCACTTCAGACAAACTGTGCAGAAGAGCAGGTGCTGATTTTCGCTTGCCTAGTGCCTGGTTTCCCAGCGGTCTTGTCATCCAGGGGTCCCTGCACACTGGAGACACTCATCAACCCTAGCCCTAGTATAGTTGATGCAAAAATATACCCAGAGGAAATCACCCCACTTCTGCCAGCCATATCAGGGGAGAAGATTGCTGAGGACCAAACCTGCTTTTTTCTTCAAATACTGTTGAAATACATGGTTATTCAGGCTGCAAGCTTGGAGTGGAAGAATAAAGAGAATCAAGATACTGGTTTTAAATTTCTTTTTACGTTGTTTCGAAAGTATTATCTTCCTCATTTGTTTCCATCATTTACTAAATTAACCAACATCTACAAACCTGTACTTGAAATTCCCCATTTGAGACCAAAGCCAGTATATGTTACTGTAACTCGAGATAATGAAACAATTTACAGTACAAAAATTCCATACATGGCAGCTCGTGTTGTTTTCATTAAATGGATTGTAACTTTCTTTTTGGAAAAAAAGTATCTAACTGCAACACAAAACACTAAAAATGGAGTTGATGTATTGCCTAAAATCATCCAGACTGTTGGTGGTGGTGCAATACAAGAGAAGGTACCAGAGCTGGATGGTGCTGGGTCCACAGAACAGGACAAAAGCCATTCTAACAGCAGCACCTTGTCTGACCGAAGACTCAGCAACTCCAGTCTTTGTAGCATTGAAGAGGAGCATCGGACAGTGTATGAGATGGTGCAGCGGATCCTCCTGTCAACACGGGGTTATGTGAATTTTGTGAATGAAGTATTTCGACAG
Peptide sequence:
MVIQAASLEWKNKENQDTGFKFLFTLFRKYYLPHLFPSFTKLTNIYKPVLEIPHLRPKPVYVTVTRDNETIYSTKIPYMAARVVFIKWIVTFFLEKKYLTATQNTKNGVDVLPKIIQTVGGGAIQEKVPELDGAGSTEQDKSHSNSSTLSDRRLSNSSLCSIEEEHRTVYEMVQRILLSTRGYVNFVNEVFRQKILQFLPERIFFRWHYQSIGSTLKKLLHTGNSIKIRCEGIRLFLLWLQALQTNCAEEQVLIFACLVPGFPAVLSSRGPCTLETLINPSPSIVDAKIYPEEITPLLPAISGEKIAEDQTCFFLQILLKYMVIQAASLEWKNKENQDTGFKFLFTLFRKYYLPHLFPSFTKLTNIYKPVLEIPHLRPKPVYVTVTRDNETIYSTKIPYMAARVVFIKWIVTFFLEKKYLTATQNTKNGVDVLPKIIQTVGGGAIQEKVPELDGAGSTEQDKSHSNSSTLSDRRLSNSSLCSIEEEHRTVYEMVQRILLSTRGYVNFVNEVFRQ
IRESfinder result
IRESfinder score
0.798732016
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page