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mmu_circSafb_1547
Basic information of circular RNA
PanCircBase ID:
mmu_circSafb_1547
mm39_Chr. Position ID:
chr17|56900689|56908531|+
Gene name:
Safb
Transcript:
ENSMUST00000182533.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,145,1962,4098,4954,5933,6648,7132,7358,7537,7753
Genomic length:
7842
Exon/intron sizes in nt:
65,207,63,28,577,50,95,150,83,140,89
Flanking exon/introns:
chr17:56895866-56900689|chr17:56908531-56909876
Splice length:
1547
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_156806
Human Ortholog IDs:
Mature spliced Sequence:
GGAGGAAACCAGAAGACGAGGGTGTGGAGGACAACGGGCTCGAGGAGAATTCTGGGGATGGGCAGGAGGATGTGGAGACCAGCCTGGAGAACCTGCAAGACATGGATATGATGGACATCAGTGTGCTGGATGAGGCTGACATTGACAATGGCAGCGTGGCAGACTGTGTGGAGGAAGAGGAGGAGGCCACACTCCCTGAGGGCCTAGCAGACAGCACTGAACTGGTAGAAGGAGATTTGAAAGGGCTCCCAGAACAGCTGCAGGAGCATGCTATAGATGACAAGGACACCGTTAACAATGTAGATACGTCATCATCTGACTTCACCATGCTGCAGGAGATGGAAGAGGCATCTTTGGAGCCAGAAAATGAGAAAATACTCGACATTTTGGGGGAAACTTGTAAATCTGAGCCAGTAAAAGAAGAAGGTTCGGAGCTGGAGCAGCCCTTTGCCCAGGCCACGAGTAGCGTGGGGCCAGACAGGAAGCTGGCGGAGGAAGAGGACCTATTTGAGAGCTGCGGCCACCCGGAAGAGGAAGAGGAAGAGGAGGAAGAAGATCAGGAAGAGGAGCAGGAGGAGGAGGGAGATTTAGCTTTGGCCAGCAGCAGCAAGTCTGAGTCTCCAAGCACTCGGTGTCAGTGGAGCGAGGCAGATGCCCCGTTAGCAGTAGTGAAAAGGGAGCCGGCAGATGCGCCTGGCGGAGGCACTGGGATGGACCGCGAGCCTGTAGGGCTAGAGGAGCCAGTTGAACAGAGTAGCACGGCTGCCCAGCTCCCGGAGGCCACCAGCCAGGAGCTGGTGCGAGCGCCCACGGCAGCCCTGAGCCCTGAGCCCCAAGATAGCAAAGAAGACGTGAAGAAGTTTGCTTTTGACGCTTGTAATGACGTCCCTGCGCCTCCTAAAGAGTCCTCAGCCAGTGAGGGCGCTGATCAGAAAATGAGTTCTGTGGAGGAGGACTCGGATACAAAAAGGCTTTCCCGAGAAGAGAAGGGTCGCAGCAGCTGTGGTAGGAATTTCTGGGTTAGTGGCCTTTCGTCTACAACCAGAGCCACGGATCTGAAGAACCTGTTTAGCAGATATGGGAAGGTGGTGGGTGCTAAGGTTGTGACGAACGCCCGGAGTCCTGGAGCTCGCTGTTATGGCTTTGTCACTATGTCCACAGCTGAAGAGGCAACAAAATGCATTAGCCATTTGCACAAGACTGAGCTGCATGGCAAGATGATCTCAGTGGAAAAGGCCAAAAGTGAGCCCACTGGCAAAAGAGTGCCTGACAGGCGAGATGGGGACAGCAAGAAGGAGAAGGCCAGCACCAGTGACAGATCTGCAAACCTTAAGAGGGAGGAGAAAGGTGAGAGAAAAGACGATGCCAAGAAGACAGATGATGGGAGCACAGAGAAGAGCAAAGACGCAGATGACCAGAAACCTGGGCCTTCAGAGCGCTCGCGAACGACCAAGTCAGGAAGCCGTGGCACTGAGCGCACTGTGGTGATGGACAAGTCCAAAGGTGTGCCTGTCATCAGTGTGAAAACATCTGGGTCTAAAGAGAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGTGCCTGTCATCAGTG
59.96
AGGTTCTCCAGGCTGGTCTC
60.91
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGTGCCTGTCATCAGTG
59.96
CTTGCAGGTTCTCCAGGCTG
60.96
145
PCR template sequence:
GACCAAGTCAGGAAGCCGTGGCACTGAGCGCACTGTGGTGATGGACAAGTCCAAAGGTGTGCCTGTCATCAGTGTGAAAACATCTGGGTCTAAAGAGAGAGGAGGAAACCAGAAGACGAGGGTGTGGAGGACAACGGGCTCGAGGAGAATTCTGGGGATGGGCAGGAGGATGTGGAGACCAGCCTGGAGAACCTGCAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(2), mmu-miR-207(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-103-3p(1), mmu-miR-19b-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-19a-3p(1), mmu-miR-24-3p(1), mmu-miR-431-5p(1), mmu-miR-107-3p(1), mmu-miR-680(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-484(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GTCTAAAGAGAGAGGAGGAAACCAGA
siRNA sets
TTTCCTCCTCTCTCTTTAG, TCTGGTTTCCTCCTCTCTC, TTCCTCCTCTCTCTTTAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSAFB_1547_ORF_1
1.1627
0.370934272
0.999932222
1557
ORF sequence:
ATGGATATGATGGACATCAGTGTGCTGGATGAGGCTGACATTGACAATGGCAGCGTGGCAGACTGTGTGGAGGAAGAGGAGGAGGCCACACTCCCTGAGGGCCTAGCAGACAGCACTGAACTGGTAGAAGGAGATTTGAAAGGGCTCCCAGAACAGCTGCAGGAGCATGCTATAGATGACAAGGACACCGTTAACAATGTAGATACGTCATCATCTGACTTCACCATGCTGCAGGAGATGGAAGAGGCATCTTTGGAGCCAGAAAATGAGAAAATACTCGACATTTTGGGGGAAACTTGTAAATCTGAGCCAGTAAAAGAAGAAGGTTCGGAGCTGGAGCAGCCCTTTGCCCAGGCCACGAGTAGCGTGGGGCCAGACAGGAAGCTGGCGGAGGAAGAGGACCTATTTGAGAGCTGCGGCCACCCGGAAGAGGAAGAGGAAGAGGAGGAAGAAGATCAGGAAGAGGAGCAGGAGGAGGAGGGAGATTTAGCTTTGGCCAGCAGCAGCAAGTCTGAGTCTCCAAGCACTCGGTGTCAGTGGAGCGAGGCAGATGCCCCGTTAGCAGTAGTGAAAAGGGAGCCGGCAGATGCGCCTGGCGGAGGCACTGGGATGGACCGCGAGCCTGTAGGGCTAGAGGAGCCAGTTGAACAGAGTAGCACGGCTGCCCAGCTCCCGGAGGCCACCAGCCAGGAGCTGGTGCGAGCGCCCACGGCAGCCCTGAGCCCTGAGCCCCAAGATAGCAAAGAAGACGTGAAGAAGTTTGCTTTTGACGCTTGTAATGACGTCCCTGCGCCTCCTAAAGAGTCCTCAGCCAGTGAGGGCGCTGATCAGAAAATGAGTTCTGTGGAGGAGGACTCGGATACAAAAAGGCTTTCCCGAGAAGAGAAGGGTCGCAGCAGCTGTGGTAGGAATTTCTGGGTTAGTGGCCTTTCGTCTACAACCAGAGCCACGGATCTGAAGAACCTGTTTAGCAGATATGGGAAGGTGGTGGGTGCTAAGGTTGTGACGAACGCCCGGAGTCCTGGAGCTCGCTGTTATGGCTTTGTCACTATGTCCACAGCTGAAGAGGCAACAAAATGCATTAGCCATTTGCACAAGACTGAGCTGCATGGCAAGATGATCTCAGTGGAAAAGGCCAAAAGTGAGCCCACTGGCAAAAGAGTGCCTGACAGGCGAGATGGGGACAGCAAGAAGGAGAAGGCCAGCACCAGTGACAGATCTGCAAACCTTAAGAGGGAGGAGAAAGGTGAGAGAAAAGACGATGCCAAGAAGACAGATGATGGGAGCACAGAGAAGAGCAAAGACGCAGATGACCAGAAACCTGGGCCTTCAGAGCGCTCGCGAACGACCAAGTCAGGAAGCCGTGGCACTGAGCGCACTGTGGTGATGGACAAGTCCAAAGGTGTGCCTGTCATCAGTGTGAAAACATCTGGGTCTAAAGAGAGAGGAGGAAACCAGAAGACGAGGGTGTGGAGGACAACGGGCTCGAGGAGAATTCTGGGGATGGGCAGGAGGATGTGGAGACCAGCCTGGAGAACCTGCAAGACATGGATATGA
Peptide sequence:
MDMMDISVLDEADIDNGSVADCVEEEEEATLPEGLADSTELVEGDLKGLPEQLQEHAIDDKDTVNNVDTSSSDFTMLQEMEEASLEPENEKILDILGETCKSEPVKEEGSELEQPFAQATSSVGPDRKLAEEEDLFESCGHPEEEEEEEEEDQEEEQEEEGDLALASSSKSESPSTRCQWSEADAPLAVVKREPADAPGGGTGMDREPVGLEEPVEQSSTAAQLPEATSQELVRAPTAALSPEPQDSKEDVKKFAFDACNDVPAPPKESSASEGADQKMSSVEEDSDTKRLSREEKGRSSCGRNFWVSGLSSTTRATDLKNLFSRYGKVVGAKVVTNARSPGARCYGFVTMSTAEEATKCISHLHKTELHGKMISVEKAKSEPTGKRVPDRRDGDSKKEKASTSDRSANLKREEKGERKDDAKKTDDGSTEKSKDADDQKPGPSERSRTTKSGSRGTERTVVMDKSKGVPVISVKTSGSKERGGNQKTRVWRTTGSRRILGMGRRMWRPAWRTCKTWI
IRESfinder result
IRESfinder score
0.205232775
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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