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mmu_circ4833420G17Rik_750
Basic information of circular RNA
PanCircBase ID:
mmu_circ4833420G17Rik_750
mm39_Chr. Position ID:
chr13|119608674|119617566|+
Gene name:
4833420G17Rik
Transcript:
ENSMUST00000026519.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
5,6,7,8,9,10,11
Exon/intron offsets:
0,1694,2694,3798,5545,7289,8796
Genomic length:
8892
Exon/intron sizes in nt:
102,124,92,70,171,95,96
Flanking exon/introns:
chr13:119606697-119608674|chr13:119617566-119620988
Splice length:
750
Other database IDs:
circBase: mmu_circ_0004478, CIRCpedia: MMU_CIRCpedia_220859, circAtlas: mmu-4833420G17Rik_0002
Human Ortholog IDs:
Mature spliced Sequence:
GTGGACCTTCTGTGACTCACTTCTACAGAGACAGCCCGATGCAGAAGACTTTTCCTATCCTGAGCTTGTGAAGGTGGTGTGGTATAAGGGTGTTACATACAGGCTTACCCATAAAAATGTAAACTCAATAGAGATTTTTCCTGGAGACGGATCGGTTTTCAAGTCAGAAGGGGCTCATTTTGGTAACTATTTTACATATTATCCAAGTCAAGAAGAATCAGAAAAGAGAGAAGAGAAAACTTACTCTGTAAATAACCTTCCTCCAGACAGACCAGGAAATTTCTTCTCTGTGCGTTCTCTGATTAAACAGGCAACCAGAATTCTTCAACATTGTGCCAAGATAAGGCTTTCCCTAAGCCACAACTACAGAGTGTGCTGCTGGAAAATGGCACCTGGAGTAAGTGTTAGCACTATCCTGCCCGTGCTTCTGAAGGAATCCCTCATCCCAGGCGTGGGGAGATTCCTTGCCTACTCCGATGACAAAGTCCATGCTGTCTTTTTGGATGGCGTCACAGTAACACTGAATTGGCATCTCAGCTCCTCTGCTGAGAAGAAACAAGTAGATCAAGGGCTCAGCTTCGGTTGGTGCAGATTAACTTTTCCTGATGGACAGGATCAGTTAATTCCAACTGAACACCCTGGAGCGTATGAAAGATATGTGACATCAGTAATATCATGGTGCAGAGGACTAACACAGACTAGCCCAAGACAGGTGCCCACACATCTCTCACCTGCTCTCAAAGAAAACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGCAGAGGACTAACACAG
59.66
ACCACCTTCACAAGCTCAGG
59.89
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGCAGAGGACTAACACA
58.58
ACCACCTTCACAAGCTCAGG
59.89
152
PCR template sequence:
AAAGATATGTGACATCAGTAATATCATGGTGCAGAGGACTAACACAGACTAGCCCAAGACAGGTGCCCACACATCTCTCACCTGCTCTCAAAGAAAACTGGTGGACCTTCTGTGACTCACTTCTACAGAGACAGCCCGATGCAGAAGACTTTTCCTATCCTGAGCTTGTGAAGGTGGTGTGGTATAAGGGTGTTACATAC
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-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-298-5p(1), mmu-miR-411-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
TCAAAGAAAACTGGTGGACCTTCTGT
siRNA sets
AAGGTCCACCAGTTTTCTT,GAAGGTCCACCAGTTTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4833420G17RIK_750_ORF_1
0.7057
-0.024066907
0.981431368
1113
ORF sequence:
ATGGCACCTGGAGTAAGTGTTAGCACTATCCTGCCCGTGCTTCTGAAGGAATCCCTCATCCCAGGCGTGGGGAGATTCCTTGCCTACTCCGATGACAAAGTCCATGCTGTCTTTTTGGATGGCGTCACAGTAACACTGAATTGGCATCTCAGCTCCTCTGCTGAGAAGAAACAAGTAGATCAAGGGCTCAGCTTCGGTTGGTGCAGATTAACTTTTCCTGATGGACAGGATCAGTTAATTCCAACTGAACACCCTGGAGCGTATGAAAGATATGTGACATCAGTAATATCATGGTGCAGAGGACTAACACAGACTAGCCCAAGACAGGTGCCCACACATCTCTCACCTGCTCTCAAAGAAAACTGGTGGACCTTCTGTGACTCACTTCTACAGAGACAGCCCGATGCAGAAGACTTTTCCTATCCTGAGCTTGTGAAGGTGGTGTGGTATAAGGGTGTTACATACAGGCTTACCCATAAAAATGTAAACTCAATAGAGATTTTTCCTGGAGACGGATCGGTTTTCAAGTCAGAAGGGGCTCATTTTGGTAACTATTTTACATATTATCCAAGTCAAGAAGAATCAGAAAAGAGAGAAGAGAAAACTTACTCTGTAAATAACCTTCCTCCAGACAGACCAGGAAATTTCTTCTCTGTGCGTTCTCTGATTAAACAGGCAACCAGAATTCTTCAACATTGTGCCAAGATAAGGCTTTCCCTAAGCCACAACTACAGAGTGTGCTGCTGGAAAATGGCACCTGGAGTAAGTGTTAGCACTATCCTGCCCGTGCTTCTGAAGGAATCCCTCATCCCAGGCGTGGGGAGATTCCTTGCCTACTCCGATGACAAAGTCCATGCTGTCTTTTTGGATGGCGTCACAGTAACACTGAATTGGCATCTCAGCTCCTCTGCTGAGAAGAAACAAGTAGATCAAGGGCTCAGCTTCGGTTGGTGCAGATTAACTTTTCCTGATGGACAGGATCAGTTAATTCCAACTGAACACCCTGGAGCGTATGAAAGATATGTGACATCAGTAATATCATGGTGCAGAGGACTAACACAGACTAGCCCAAGACAGGTGCCCACACATCTCTCACCTGCTCTCAAAGAAAAC
Peptide sequence:
MAPGVSVSTILPVLLKESLIPGVGRFLAYSDDKVHAVFLDGVTVTLNWHLSSSAEKKQVDQGLSFGWCRLTFPDGQDQLIPTEHPGAYERYVTSVISWCRGLTQTSPRQVPTHLSPALKENWWTFCDSLLQRQPDAEDFSYPELVKVVWYKGVTYRLTHKNVNSIEIFPGDGSVFKSEGAHFGNYFTYYPSQEESEKREEKTYSVNNLPPDRPGNFFSVRSLIKQATRILQHCAKIRLSLSHNYRVCCWKMAPGVSVSTILPVLLKESLIPGVGRFLAYSDDKVHAVFLDGVTVTLNWHLSSSAEKKQVDQGLSFGWCRLTFPDGQDQLIPTEHPGAYERYVTSVISWCRGLTQTSPRQVPTHLSPALKEN
IRESfinder result
IRESfinder score
0.670412163
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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