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mmu_circSanbr_1227
Basic information of circular RNA
PanCircBase ID:
mmu_circSanbr_1227
mm39_Chr. Position ID:
chr11|23561746|23581334|-
Gene name:
Sanbr
Transcript:
ENSMUST00000155903.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,215,3349,5391,8482,10689,13189,17126,19458
Genomic length:
19588
Exon/intron sizes in nt:
1,11,87,16,15,92,39,94,00,00,00,000
Flanking exon/introns:
chr11:23559124-23561746|chr11:23581334-23583492
Splice length:
1227
Other database IDs:
CIRCpedia: MMU_CIRCpedia_13959, circAtlas: mmu-0610010F05Rik_0010
circBase: hsa_circ_0054702, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_41792
Human Ortholog IDs:
Mature spliced Sequence:
ATGAGGAAACTGAGACACGGATTATCTGAATTAGACAATATCTTAATGGTAGAACCAAGATATAAAGTTGGACAGTTTGACTTCAGAATCTATACTTGTAACTCGTACATTGTACTGGGCCTTCAGTAAGCTCTAAAAGATGAGTCGTGGATATCCAGAAAACAATAATTTTCTGAATAATAATAACCAAATGGTATTGGATATGATTCTTTATCCATTGATTGGAATCCCTCAGACCATCAACTGGGAAACTGTGGCAAGGCTTGTGCCTGGATTAACGCCCAAAGAGTGTGTGAAAAGGTTTGATGAGCTAAAGAGCTGTGGAAGTTCACCTGTTGACAACCAGTATAACCCTTTAATGGCTACTGGAGAGGGTCCTGTTGAAACTTTAGCCACTTACATTAAATCTTCACTTCTGGACACACAAGGAGATTTTCAAGAGACTCCTGTTGATCAAGATACAGTTTCTAAAGCAGGAAGACATAGTATAGCTACCACAAGGAATTGCTCTTCAGAAAGTGAAAACTGTACTGCTCGTAATGCTGGAGAAGAGACTGGAGAATCTGAAGGGCCAAACATGGTGATCCATGTATGTGATGAAGCAAAAAGCTTGAAAGAAGATTTTATTTGCCCACGAGATCTTTTGATATCAGAAATGAAGTACTTTGCTGAATATTTATCCATGGATGCGCAGCGCTGGGAAGAAGTGGACATTTCAGTTCATTGCGATGTTCACATTTTCAACTGGCTGATAAAATATGTTAAACGGAACACTAAGGAGAGTAAAGATTGTGAGATTCCCGCTTTAGAGCCAGGGAATGTCATTTCAATCCTTATTTCATCAGAGTTCTTGAAGATGGATTCACTAGTTGAACAATGTATTCAATATTGCCATAAAAATATGAATGCCATAGTAGCTGCTCCATGCAACATGAACTGTATCAATGCAAACCTTCTTACACGCATAGCTGATCTGTTCACACACAATGAAATTGATGACTTAAAAGACAAAAAAGATAAGTTTAGGAGTAAACTGTTTTGTAAGAAGATTGAAAGACTCTTTGATCCTGAATACTCCAATCCAGATTCTAGAAACAATGCAGCAACACTCTATCGATGCTGTTTGTGTAAGAAACTTTTAACCAGAGAAACAGAAAGAAGAATTCCTTGCATCCCTGGAAAAATCAATGTGGACCGACATGGAAATATTATCTACATCCACATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAATTCCTTGCATCCCTGGA
59.07
TCTGAAGTCAAACTGTCCAACT
57.51
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAATTCCTTGCATCCCTGGA
59.07
TCTGAAGTCAAACTGTCCAACTT
58.16
155
PCR template sequence:
GTAAGAAACTTTTAACCAGAGAAACAGAAAGAAGAATTCCTTGCATCCCTGGAAAAATCAATGTGGACCGACATGGAAATATTATCTACATCCACATAAGATGAGGAAACTGAGACACGGATTATCTGAATTAGACAATATCTTAATGGTAGAACCAAGATATAAAGTTGGACAGTTTGACTTCAGAATCTATACTTGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(2), mmu-miR-328-3p(1), mmu-miR-203-3p(1), mmu-miR-541-5p(1), mmu-miR-207(1), mmu-miR-300-3p(1), mmu-miR-669d-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACATCCACATAAGATGAGGAAACTGA
siRNA sets
AGTTTCCTCATCTTATGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSANBR_1227_ORF_1
0.8566
0.024309393
0.986239896
1092
ORF sequence:
ATGAGTCGTGGATATCCAGAAAACAATAATTTTCTGAATAATAATAACCAAATGGTATTGGATATGATTCTTTATCCATTGATTGGAATCCCTCAGACCATCAACTGGGAAACTGTGGCAAGGCTTGTGCCTGGATTAACGCCCAAAGAGTGTGTGAAAAGGTTTGATGAGCTAAAGAGCTGTGGAAGTTCACCTGTTGACAACCAGTATAACCCTTTAATGGCTACTGGAGAGGGTCCTGTTGAAACTTTAGCCACTTACATTAAATCTTCACTTCTGGACACACAAGGAGATTTTCAAGAGACTCCTGTTGATCAAGATACAGTTTCTAAAGCAGGAAGACATAGTATAGCTACCACAAGGAATTGCTCTTCAGAAAGTGAAAACTGTACTGCTCGTAATGCTGGAGAAGAGACTGGAGAATCTGAAGGGCCAAACATGGTGATCCATGTATGTGATGAAGCAAAAAGCTTGAAAGAAGATTTTATTTGCCCACGAGATCTTTTGATATCAGAAATGAAGTACTTTGCTGAATATTTATCCATGGATGCGCAGCGCTGGGAAGAAGTGGACATTTCAGTTCATTGCGATGTTCACATTTTCAACTGGCTGATAAAATATGTTAAACGGAACACTAAGGAGAGTAAAGATTGTGAGATTCCCGCTTTAGAGCCAGGGAATGTCATTTCAATCCTTATTTCATCAGAGTTCTTGAAGATGGATTCACTAGTTGAACAATGTATTCAATATTGCCATAAAAATATGAATGCCATAGTAGCTGCTCCATGCAACATGAACTGTATCAATGCAAACCTTCTTACACGCATAGCTGATCTGTTCACACACAATGAAATTGATGACTTAAAAGACAAAAAAGATAAGTTTAGGAGTAAACTGTTTTGTAAGAAGATTGAAAGACTCTTTGATCCTGAATACTCCAATCCAGATTCTAGAAACAATGCAGCAACACTCTATCGATGCTGTTTGTGTAAGAAACTTTTAACCAGAGAAACAGAAAGAAGAATTCCTTGCATCCCTGGAAAAATCAATGTGGACCGACATGGAAATATTATCTACATCCACATAAGATGA
Peptide sequence:
MSRGYPENNNFLNNNNQMVLDMILYPLIGIPQTINWETVARLVPGLTPKECVKRFDELKSCGSSPVDNQYNPLMATGEGPVETLATYIKSSLLDTQGDFQETPVDQDTVSKAGRHSIATTRNCSSESENCTARNAGEETGESEGPNMVIHVCDEAKSLKEDFICPRDLLISEMKYFAEYLSMDAQRWEEVDISVHCDVHIFNWLIKYVKRNTKESKDCEIPALEPGNVISILISSEFLKMDSLVEQCIQYCHKNMNAIVAAPCNMNCINANLLTRIADLFTHNEIDDLKDKKDKFRSKLFCKKIERLFDPEYSNPDSRNNAATLYRCCLCKKLLTRETERRIPCIPGKINVDRHGNIIYIHIR
IRESfinder result
IRESfinder score
0.736193308
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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