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mmu_circGolga3_1640
Basic information of circular RNA
PanCircBase ID:
mmu_circGolga3_1640
mm39_Chr. Position ID:
chr5|110329468|110337778|+
Gene name:
Golga3
Transcript:
ENSMUST00000112512.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,2735,4183,5738,7060,8003
Genomic length:
8310
Exon/intron sizes in nt:
3,11,15,01,13,64,71,12,000
Flanking exon/introns:
chr5:110324788-110329468|chr5:110337778-110340772
Splice length:
1640
Other database IDs:
circBase: hsa_circ_0029575, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_7786
Human Ortholog IDs:
Mature spliced Sequence:
GAATCATGGTTGCTTGGTTTGACTTCAAGCCATTTATGAGACATTAAACCTGAAAATGGAAAACAGAGTAAGATCCTCCTTAGAAGCTCTGAGCTGTTGCTAATGGCAAAAAACAAACTTAATCCAGAGTTACTTGTAGCTCCTCAGAGTCTTCTTAGTCTGGGCTGCCCTGACCATGGATGGAGCATCAGCCAAACAGGATGGCCTCTGGGAAAGCAAGTCCAGCAGTGATGTTTCATCTTGCCCTGAAGCCTCGCTGGAGATTGTGGGCTCTCTGGCCCGACTGCCTGATCAACAGGATACAGCTCAGGATGCCAGTGTTGAGGTAAACAGAGGTTTTAAGGAAGAAGGAAGCCCAGATAGATCCAGCCAGGTGGCCATCTGTCAGAATGGGCAGATCCCAGACCTTCAGTTGTCCCTTGATCCCACAACAAGCCCAGTGGGACCTGATGCCTCTACAGGCTCCACTGCATCTTCATTGCCTTTGGAAAAGGAGGAGCAGGTTCGACTGCAGGCCCGGAAGCGCCTGGAAGAGCAGCTGATGCAGTACCGAGTTAAGCGCCATCGGGAAAGGTCCAGTCAACCTGCAACTAAAATGAAACTTTTTAGTACACTTGATCCTGAGCTCATGTTAAATCCAGAAAATTTGCCAAGGGCCAGTACTGTAGCTGTGACAAAAGAATATTCCTTCCTGCGTACCAGTGTTCCTCGAGGGCCCAAGGTAGGCAGCTTAGGGCTGCTGGCACATTCTAAAGAGAAAAAGAACTCCAAATCAAGCAAGATTCGGTCTCTGGCTGACTATAGAACTGAAGATCCAAGTGACTCTGGTGGCCTTGGTTCTACTGCTGATGCTGTTGGAAGTTCCCTGAAACAAAGTAGAAGTAGCACTTCAGTTGTGTCTGAGGTTAGCCCATCATCTGAGACTGATAACCGTGTAGAGAGTGCCTCCATGACTGGGGATAGTGTGTCAGAGGCTGATGGAAATGAGAGTGACAGTTCCTCACACAGCAGCCTCTCTGCCCGAGGGGCCTGTGGTGTCCTGGGGAACGTGGGCATGCCAGGAACAGCTTACATGGTTGATGGCCAGGAGATTTCTGCTGAGGCCCTGGGCCAGTTTCCTTCAATTAAAGACGTACTACAGGCTGCAGCAGCCCAGCACCAAGATCAGAACCAGGAAGCCAACGGAGAGGTGCGGAGCCGTAGAGACAGCATCTGCAGCAGTGTGTCCATGGAGAGCTCCTTGGCTGAACCACAGGATGAATTGTTGCAGATTCTTAAAGATAAAAGGAGGCTTGAAGGACAGGTGGAGGCTTTGTCATTAGAAGCCAGTCAGGCACTTCAAGAGAAGGCTGAGCTACAGGCCCAGCTTGCTGCCCTGAGCACAAGGCTACAGGCACAGGTGGAACACAGCCACAGCAGCCAGCAGAAGCAAGACTCCCTTAGTTCTGAAGTGGACACTTTGAAGCAGTCTTGCTGGGATCTAGAGCGGGCCATGACTGACCTGCAGAGCATGCTAGAAGCTAAAAATGCCAGCCTGGCATCCTCAAACAATGACCTACAAGTGGCAGAGGAGCAGTATCAGAGACTGATGGCCAAAGTGGAGGACATGCAGAGAAACATCCTCAGCAAGGACAACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATGGCCAAAGTGGAGGAC
59.96
GCTCAGAGCTTCTAAGGAGGA
58.62
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGATGGCCAAAGTGGAGG
59.96
GCTCAGAGCTTCTAAGGAGGA
58.62
150
PCR template sequence:
TCCTCAAACAATGACCTACAAGTGGCAGAGGAGCAGTATCAGAGACTGATGGCCAAAGTGGAGGACATGCAGAGAAACATCCTCAGCAAGGACAACACAGGAATCATGGTTGCTTGGTTTGACTTCAAGCCATTTATGAGACATTAAACCTGAAAATGGAAAACAGAGTAAGATCCTCCTTAGAAGCTCTGAGCTGTTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-31-5p(1), mmu-miR-101a-3p(1), mmu-miR-217-5p(1), mmu-miR-101b-3p(1), mmu-miR-24-3p(1), mmu-miR-351-5p(1), mmu-miR-26b-5p(1), mmu-miR-673-5p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGGACAACACAGGAATCATGGTTGC
siRNA sets
CATGATTCCTGTGTTGTCC, ATGATTCCTGTGTTGTCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGOLGA3_1640_ORF_1
1.086
0.274156136
0.999838656
1512
ORF sequence:
ATGGATGGAGCATCAGCCAAACAGGATGGCCTCTGGGAAAGCAAGTCCAGCAGTGATGTTTCATCTTGCCCTGAAGCCTCGCTGGAGATTGTGGGCTCTCTGGCCCGACTGCCTGATCAACAGGATACAGCTCAGGATGCCAGTGTTGAGGTAAACAGAGGTTTTAAGGAAGAAGGAAGCCCAGATAGATCCAGCCAGGTGGCCATCTGTCAGAATGGGCAGATCCCAGACCTTCAGTTGTCCCTTGATCCCACAACAAGCCCAGTGGGACCTGATGCCTCTACAGGCTCCACTGCATCTTCATTGCCTTTGGAAAAGGAGGAGCAGGTTCGACTGCAGGCCCGGAAGCGCCTGGAAGAGCAGCTGATGCAGTACCGAGTTAAGCGCCATCGGGAAAGGTCCAGTCAACCTGCAACTAAAATGAAACTTTTTAGTACACTTGATCCTGAGCTCATGTTAAATCCAGAAAATTTGCCAAGGGCCAGTACTGTAGCTGTGACAAAAGAATATTCCTTCCTGCGTACCAGTGTTCCTCGAGGGCCCAAGGTAGGCAGCTTAGGGCTGCTGGCACATTCTAAAGAGAAAAAGAACTCCAAATCAAGCAAGATTCGGTCTCTGGCTGACTATAGAACTGAAGATCCAAGTGACTCTGGTGGCCTTGGTTCTACTGCTGATGCTGTTGGAAGTTCCCTGAAACAAAGTAGAAGTAGCACTTCAGTTGTGTCTGAGGTTAGCCCATCATCTGAGACTGATAACCGTGTAGAGAGTGCCTCCATGACTGGGGATAGTGTGTCAGAGGCTGATGGAAATGAGAGTGACAGTTCCTCACACAGCAGCCTCTCTGCCCGAGGGGCCTGTGGTGTCCTGGGGAACGTGGGCATGCCAGGAACAGCTTACATGGTTGATGGCCAGGAGATTTCTGCTGAGGCCCTGGGCCAGTTTCCTTCAATTAAAGACGTACTACAGGCTGCAGCAGCCCAGCACCAAGATCAGAACCAGGAAGCCAACGGAGAGGTGCGGAGCCGTAGAGACAGCATCTGCAGCAGTGTGTCCATGGAGAGCTCCTTGGCTGAACCACAGGATGAATTGTTGCAGATTCTTAAAGATAAAAGGAGGCTTGAAGGACAGGTGGAGGCTTTGTCATTAGAAGCCAGTCAGGCACTTCAAGAGAAGGCTGAGCTACAGGCCCAGCTTGCTGCCCTGAGCACAAGGCTACAGGCACAGGTGGAACACAGCCACAGCAGCCAGCAGAAGCAAGACTCCCTTAGTTCTGAAGTGGACACTTTGAAGCAGTCTTGCTGGGATCTAGAGCGGGCCATGACTGACCTGCAGAGCATGCTAGAAGCTAAAAATGCCAGCCTGGCATCCTCAAACAATGACCTACAAGTGGCAGAGGAGCAGTATCAGAGACTGATGGCCAAAGTGGAGGACATGCAGAGAAACATCCTCAGCAAGGACAACACAGGAATCATGGTTGCTTGGTTTGACTTCAAGCCATTTATGAGACATTAA
Peptide sequence:
MDGASAKQDGLWESKSSSDVSSCPEASLEIVGSLARLPDQQDTAQDASVEVNRGFKEEGSPDRSSQVAICQNGQIPDLQLSLDPTTSPVGPDASTGSTASSLPLEKEEQVRLQARKRLEEQLMQYRVKRHRERSSQPATKMKLFSTLDPELMLNPENLPRASTVAVTKEYSFLRTSVPRGPKVGSLGLLAHSKEKKNSKSSKIRSLADYRTEDPSDSGGLGSTADAVGSSLKQSRSSTSVVSEVSPSSETDNRVESASMTGDSVSEADGNESDSSSHSSLSARGACGVLGNVGMPGTAYMVDGQEISAEALGQFPSIKDVLQAAAAQHQDQNQEANGEVRSRRDSICSSVSMESSLAEPQDELLQILKDKRRLEGQVEALSLEASQALQEKAELQAQLAALSTRLQAQVEHSHSSQQKQDSLSSEVDTLKQSCWDLERAMTDLQSMLEAKNASLASSNNDLQVAEEQYQRLMAKVEDMQRNILSKDNTGIMVAWFDFKPFMRH
IRESfinder result
IRESfinder score
0.438541895
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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