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mmu_circGolga1_1097
Basic information of circular RNA
PanCircBase ID:
mmu_circGolga1_1097
mm39_Chr. Position ID:
chr2|38931238|38953516|-
Gene name:
Golga1
Transcript:
ENSMUST00000039165.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,5796,6370,7083,8932,10777,11729,14833,22015
Genomic length:
22278
Exon/intron sizes in nt:
12,61,12,17,01,29,33,90,00,00,000
Flanking exon/introns:
chr2:38929147-38931238|chr2:38953516-38954686
Splice length:
1097
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19025, circAtlas: mmu-Golga1_0008
circAtlas: hsa-GOLGA1_0025
Human Ortholog IDs:
Mature spliced Sequence:
ATCTTGTGTTGCCAAAATTCTTTGGCCCACATTTAAGTGGGATGCAGCTAGCCTGGAGGTGTGAATGAATTTCATTCACTGAGAAGTCTAGGGGTTAGTTAACCCTGAAAGATATCCACACAGCAAAAATGTTTGCAAAACTAAAGAAGAAAATTGCAGAAGAGACTGCTGTTGCTCAGAGACCAGGCGGCACAACAAGGATCCCACGCTCTGTGAGCAAGGAGTCTGTGGCCTCCATGGGAGCTGACTCTGGAGATGATTTTGCTTCCGATGGTAGCAGCTCCAGAGAAGATCTCTCATCCCAGCTTTTGAGAAGAAATGAACAGATACGGAAGTTAGAGGCCAGACTTTCTGACTATGCTGAACAGGTCCGAAACTTGCAGAAGATAAAAGAGAAGCTTGAAATTGCATTAGAAAAACACCAGGATTCTTCCATGCGGAAATTTCAAGAACAGAATGAAACATTCCAAGCCAGCAGAGCCAAAATGGCAGAAGGACTGGCTTTGGCTTTAGCCAGGAAGGACCAGGAATGGTCAGAAAAGATGGAACAGCTTGAAAAGGATAAAAGGTTTCTAACATCTCAGCTGCAAGAAGTAAAGAACCAGAGCTTGAGCCTTTTTCAAAAAAGAGATGAAATTGATGAATTAGAGGGGTTCCAGCAGCAGGAAATCAGCAAAGTAAAACACATGCTTTTAAAAAAAGAAGAATGCTTGGGGAAGATGGAGCAAGAATTGGATGCACGAACCAGGGAACTTAACCGTACTCAGGAGGAGTTGGTGACTTCTAATCAGTTGTCATCTGACTTAAACGAGCGGCTAGAAGAATTGCAGAGACACTGCTCAACGCTGGAAGAGCAGAGAGATCACTTGACAGCTTCAAAAGCAGGTGCAGAACATAAGATTGTAGTCCTGGAACAAAAGGAACAAGAGCTCCAGGCGATCATCCAGCAGCATTCCATTGACCTACAAAAGGTCACTGCTGAAACGCAAGAAAAAGAAAAAGTCATCACACATCTACAAGAGAAGGTTATATTCTTGGAAAAGAGACTAGAACAGAATTTATCAGGAGAAGATCATGTACAAGAACTCTTGAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCATCACACATCTACAAGAGAAGGT
59.52
GGCTAGCTGCATCCCACTTA
59.53
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACACATCTACAAGAGAAGGT
56.5
GGCTAGCTGCATCCCACTTA
59.53
145
PCR template sequence:
AAAAGTCATCACACATCTACAAGAGAAGGTTATATTCTTGGAAAAGAGACTAGAACAGAATTTATCAGGAGAAGATCATGTACAAGAACTCTTGAAAGAGATCTTGTGTTGCCAAAATTCTTTGGCCCACATTTAAGTGGGATGCAGCTAGCCTGGAGGTGTGAATGAATTTCATTCACTGAGAAGTCTAGGGGTTAGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-34a-5p(1), mmu-miR-320-3p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-370-3p(1), mmu-miR-224-5p(1), mmu-miR-1198-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCTTGAAAGAGATCTTGTGTTGCC
siRNA sets
CAACACAAGATCTCTTTCA,AACACAAGATCTCTTTCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGOLGA1_1097_ORF_1
0.9241
0.180506812
0.988044389
1005
ORF sequence:
ATGTTTGCAAAACTAAAGAAGAAAATTGCAGAAGAGACTGCTGTTGCTCAGAGACCAGGCGGCACAACAAGGATCCCACGCTCTGTGAGCAAGGAGTCTGTGGCCTCCATGGGAGCTGACTCTGGAGATGATTTTGCTTCCGATGGTAGCAGCTCCAGAGAAGATCTCTCATCCCAGCTTTTGAGAAGAAATGAACAGATACGGAAGTTAGAGGCCAGACTTTCTGACTATGCTGAACAGGTCCGAAACTTGCAGAAGATAAAAGAGAAGCTTGAAATTGCATTAGAAAAACACCAGGATTCTTCCATGCGGAAATTTCAAGAACAGAATGAAACATTCCAAGCCAGCAGAGCCAAAATGGCAGAAGGACTGGCTTTGGCTTTAGCCAGGAAGGACCAGGAATGGTCAGAAAAGATGGAACAGCTTGAAAAGGATAAAAGGTTTCTAACATCTCAGCTGCAAGAAGTAAAGAACCAGAGCTTGAGCCTTTTTCAAAAAAGAGATGAAATTGATGAATTAGAGGGGTTCCAGCAGCAGGAAATCAGCAAAGTAAAACACATGCTTTTAAAAAAAGAAGAATGCTTGGGGAAGATGGAGCAAGAATTGGATGCACGAACCAGGGAACTTAACCGTACTCAGGAGGAGTTGGTGACTTCTAATCAGTTGTCATCTGACTTAAACGAGCGGCTAGAAGAATTGCAGAGACACTGCTCAACGCTGGAAGAGCAGAGAGATCACTTGACAGCTTCAAAAGCAGGTGCAGAACATAAGATTGTAGTCCTGGAACAAAAGGAACAAGAGCTCCAGGCGATCATCCAGCAGCATTCCATTGACCTACAAAAGGTCACTGCTGAAACGCAAGAAAAAGAAAAAGTCATCACACATCTACAAGAGAAGGTTATATTCTTGGAAAAGAGACTAGAACAGAATTTATCAGGAGAAGATCATGTACAAGAACTCTTGAAAGAGATCTTGTGTTGCCAAAATTCTTTGGCCCACATTTAA
Peptide sequence:
MFAKLKKKIAEETAVAQRPGGTTRIPRSVSKESVASMGADSGDDFASDGSSSREDLSSQLLRRNEQIRKLEARLSDYAEQVRNLQKIKEKLEIALEKHQDSSMRKFQEQNETFQASRAKMAEGLALALARKDQEWSEKMEQLEKDKRFLTSQLQEVKNQSLSLFQKRDEIDELEGFQQQEISKVKHMLLKKEECLGKMEQELDARTRELNRTQEELVTSNQLSSDLNERLEELQRHCSTLEEQRDHLTASKAGAEHKIVVLEQKEQELQAIIQQHSIDLQKVTAETQEKEKVITHLQEKVIFLEKRLEQNLSGEDHVQELLKEILCCQNSLAHI
IRESfinder result
IRESfinder score
0.560782877
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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