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mmu_circRanbp9_842
Basic information of circular RNA
PanCircBase ID:
mmu_circRanbp9_842
mm39_Chr. Position ID:
chr13|43573051|43589618|-
Gene name:
Ranbp9
Transcript:
ENSMUST00000144326.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,1635,2975,5454,10872,15238,16514
Genomic length:
16567
Exon/intron sizes in nt:
191,109,113,185,23,168,53
Flanking exon/introns:
chr13:43569945-43573051|chr13:43589618-43615187
Splice length:
842
Other database IDs:
circAtlas: mmu-Ranbp9_0017
circBase: hsa_circ_0075658, circAtlas: hsa-RANBP9_0013, CIRCpedia: HSA_CIRCpedia_99103
Human Ortholog IDs:
Mature spliced Sequence:
CTACATGGGAATTGGTCTTTCTGCTCAAGGTGTGAACATGAATAGACTACCAGGTTGGGATAAACATTCATATGGTTACCATGGGGATGATGGACATTCATTTTGTTCTTCTGGAACTGGACAACCGTATGGACCAACTTTTACAACTGGTGATGTCATTGGCTGTTGTGTTAATCTTATCAACAATACCTGCTTTTACACGAAGAATGGACATAGTTTAGGTATTGCTTTCACCGACTTACCGCCAAATTTGTATCCTACTGTGGGGCTTCAGACACCAGGAGAAGTGGTTGATGCCAACTTTGGGCAACATCCTTTTGTGTTTGATATAGAAGACTACATGCGAGAATGGAGAACCAAAATACAGGCCCAGATAGACCGCTTTCCTATCGGGGATCGAGAAGGAGAATGGCAGACCATGATCCAAAAAATGGTTTCATCTTATTTAGTCCACCATGGGTACTGTGCCACAGCAGAGGCCTTTGCCAGATCTACAGACCAGACTGTTCTAGAAGAATTAGCTTCCATTAAGAATAGACAAAGAATTCAGAAGTTGGTGTTAGCAGGACGAATGGGAGAAGCCATTGAAACAACACAACAGTTATACCCAAGTTTACTTGAAAGAAATCCCAATCTCCTTTTCACATTAAAAGTACGTCAGTTTATAGAAATGGTGAATGGTACAGACAGTGAAGTGCGGTGTTTGGGAGGCCGAAGTCCAAAATCTCAAGACAGTTATCCCGTCAGTCCTCGACCCTTTAGTAGTCCAAGCATGAGCCCCAGTCATGGAATGAGTATCCACAGCTTAGCACCAGGCAAAAGCAGCACTGCACATTTTTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCACAGCTTAGCACCAGG
59.75
ATGTCCATCATCCCCATGGT
58.46
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGCATGAGCCCCAGTCAT
60.4
CCATCATCCCCATGGTAACCA
59.5
168
PCR template sequence:
GTCAGTCCTCGACCCTTTAGTAGTCCAAGCATGAGCCCCAGTCATGGAATGAGTATCCACAGCTTAGCACCAGGCAAAAGCAGCACTGCACATTTTTCTGCTACATGGGAATTGGTCTTTCTGCTCAAGGTGTGAACATGAATAGACTACCAGGTTGGGATAAACATTCATATGGTTACCATGGGGATGATGGACATTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-150-5p(1), mmu-miR-135a-5p(1), mmu-miR-26a-5p(1), mmu-miR-26b-5p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACATTTTTCTGCTACATGGGAATT
siRNA sets
AATTCCCATGTAGCAGAAA, CATGTAGCAGAAAAATGTG, ATTCCCATGTAGCAGAAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRANBP9_842_ORF_1
0.7837
0.004137481
0.923557413
873
ORF sequence:
ATGGGAATTGGTCTTTCTGCTCAAGGTGTGAACATGAATAGACTACCAGGTTGGGATAAACATTCATATGGTTACCATGGGGATGATGGACATTCATTTTGTTCTTCTGGAACTGGACAACCGTATGGACCAACTTTTACAACTGGTGATGTCATTGGCTGTTGTGTTAATCTTATCAACAATACCTGCTTTTACACGAAGAATGGACATAGTTTAGGTATTGCTTTCACCGACTTACCGCCAAATTTGTATCCTACTGTGGGGCTTCAGACACCAGGAGAAGTGGTTGATGCCAACTTTGGGCAACATCCTTTTGTGTTTGATATAGAAGACTACATGCGAGAATGGAGAACCAAAATACAGGCCCAGATAGACCGCTTTCCTATCGGGGATCGAGAAGGAGAATGGCAGACCATGATCCAAAAAATGGTTTCATCTTATTTAGTCCACCATGGGTACTGTGCCACAGCAGAGGCCTTTGCCAGATCTACAGACCAGACTGTTCTAGAAGAATTAGCTTCCATTAAGAATAGACAAAGAATTCAGAAGTTGGTGTTAGCAGGACGAATGGGAGAAGCCATTGAAACAACACAACAGTTATACCCAAGTTTACTTGAAAGAAATCCCAATCTCCTTTTCACATTAAAAGTACGTCAGTTTATAGAAATGGTGAATGGTACAGACAGTGAAGTGCGGTGTTTGGGAGGCCGAAGTCCAAAATCTCAAGACAGTTATCCCGTCAGTCCTCGACCCTTTAGTAGTCCAAGCATGAGCCCCAGTCATGGAATGAGTATCCACAGCTTAGCACCAGGCAAAAGCAGCACTGCACATTTTTCTGCTACATGGGAATTGGTCTTTCTGCTCAAGGTGTGA
Peptide sequence:
MGIGLSAQGVNMNRLPGWDKHSYGYHGDDGHSFCSSGTGQPYGPTFTTGDVIGCCVNLINNTCFYTKNGHSLGIAFTDLPPNLYPTVGLQTPGEVVDANFGQHPFVFDIEDYMREWRTKIQAQIDRFPIGDREGEWQTMIQKMVSSYLVHHGYCATAEAFARSTDQTVLEELASIKNRQRIQKLVLAGRMGEAIETTQQLYPSLLERNPNLLFTLKVRQFIEMVNGTDSEVRCLGGRSPKSQDSYPVSPRPFSSPSMSPSHGMSIHSLAPGKSSTAHFSATWELVFLLKV
IRESfinder result
IRESfinder score
0.683152632
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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