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mmu_circ2210408I21Rik_839
Basic information of circular RNA
PanCircBase ID:
mmu_circ2210408I21Rik_839
mm39_Chr. Position ID:
chr13|77331719|77341342|+
Gene name:
2210408I21Rik
Transcript:
ENSMUST00000168779.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,8953
Genomic length:
9623
Exon/intron sizes in nt:
1,69,670
Flanking exon/introns:
chr13:77323103-77331719|chr13:77341342-77393319
Splice length:
839
Other database IDs:
circBase: mmu_circ_0004809, CIRCpedia: MMU_CIRCpedia_36280, circAtlas: mmu-2210408I21Rik_0002
circAtlas: hsa-KIAA0825_0002, CIRCpedia: HSA_CIRCpedia_357328
Human Ortholog IDs:
Mature spliced Sequence:
TATAGAACATTGCATTGAAGAAATACAGTCTGAAGTAAACAAGCTCTGTCCAGATGCACAGCTACAAACAACAAGTGACTGCTTCAAATGGCTAACTAGTTATAATTATAATTTATCTAAGTCACCATCCATTTCCCATGGAGATTTAATAAACTTCCTCAAAACAATGAAAGATTTATTGAATAATGAAGACAACCATGAAGAAATGATTCTGGATTTACTCTGGGACCTCTCCTGTCAAAGCAGCATCTCTTTCCTGTCCTCTCTGGGTGGGACAACCTTCTGTCACCTGTCCAGGACTTCCATACATTCTGTTGAAGATTTCTCCTCTGTGGATGTCAAGTCTGTTTGGGATGATGTAAGATTACATCTTCGACGATTCTTAGTAAACAGGTTAGAAAGATATAATGAGATAAACAATTCACAGCAAAAAATTGAACTGAAAAGTCAATGTATGAAGCAATTCCTCTTGCTCTACTCAGAATCAGAAGTGCTTGTCAAGTACCAAAGCATCCAGAAGAGACTGCTGGATACATTTCTGCAAGACTCCTTTCCTTCGTGCAACAGAGAATCAGATTTAGAAAGAATTGTGTGTGGATACCAAAGTACTATGCTCATGTTATATTCAATGATAAAAGAGGATTTTAATGTACTATGTGAAATTTTAGCTCCATCATCACTGGTGCAGTTCTTTAATGAAACTTACCTGGATACGGTTACAGAAGAAATGACAAAAATTCTTGAATATTTTTGTGAGCTGCAGTTCAAAGAAAATGCTGTTCCTGTAGTTAAAACAAGCAAGAGCTGCAACAAGCGCAGAGGAGCAGTGCATGCTTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAGCTGCAGTTCAAAGA
57.67
TGCATCTGGACAGAGCTTGT
59.31
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAGCTGCAGTTCAAAGA
57.67
TGTGCATCTGGACAGAGCTT
59.31
148
PCR template sequence:
CTTGAATATTTTTGTGAGCTGCAGTTCAAAGAAAATGCTGTTCCTGTAGTTAAAACAAGCAAGAGCTGCAACAAGCGCAGAGGAGCAGTGCATGCTTTGGTATAGAACATTGCATTGAAGAAATACAGTCTGAAGTAAACAAGCTCTGTCCAGATGCACAGCTACAAACAACAAGTGACTGCTTCAAATGGCTAACTAGT
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-9-5p(1), mmu-miR-206-3p(1), mmu-miR-298-5p(1), mmu-miR-431-5p(1), mmu-miR-410-3p(1), mmu-miR-5101(1), mmu-miR-539-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGCATGCTTTGGTATAGAACATTGC
siRNA sets
AATGTTCTATACCAAAGCA, CAATGTTCTATACCAAAGC, TCTATACCAAAGCATGCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2210408I21RIK_839_ORF_1
0.6242
-0.02238713
0.663643858
678
ORF sequence:
ATGAAAGATTTATTGAATAATGAAGACAACCATGAAGAAATGATTCTGGATTTACTCTGGGACCTCTCCTGTCAAAGCAGCATCTCTTTCCTGTCCTCTCTGGGTGGGACAACCTTCTGTCACCTGTCCAGGACTTCCATACATTCTGTTGAAGATTTCTCCTCTGTGGATGTCAAGTCTGTTTGGGATGATGTAAGATTACATCTTCGACGATTCTTAGTAAACAGGTTAGAAAGATATAATGAGATAAACAATTCACAGCAAAAAATTGAACTGAAAAGTCAATGTATGAAGCAATTCCTCTTGCTCTACTCAGAATCAGAAGTGCTTGTCAAGTACCAAAGCATCCAGAAGAGACTGCTGGATACATTTCTGCAAGACTCCTTTCCTTCGTGCAACAGAGAATCAGATTTAGAAAGAATTGTGTGTGGATACCAAAGTACTATGCTCATGTTATATTCAATGATAAAAGAGGATTTTAATGTACTATGTGAAATTTTAGCTCCATCATCACTGGTGCAGTTCTTTAATGAAACTTACCTGGATACGGTTACAGAAGAAATGACAAAAATTCTTGAATATTTTTGTGAGCTGCAGTTCAAAGAAAATGCTGTTCCTGTAGTTAAAACAAGCAAGAGCTGCAACAAGCGCAGAGGAGCAGTGCATGCTTTGGTATAG
Peptide sequence:
MKDLLNNEDNHEEMILDLLWDLSCQSSISFLSSLGGTTFCHLSRTSIHSVEDFSSVDVKSVWDDVRLHLRRFLVNRLERYNEINNSQQKIELKSQCMKQFLLLYSESEVLVKYQSIQKRLLDTFLQDSFPSCNRESDLERIVCGYQSTMLMLYSMIKEDFNVLCEILAPSSLVQFFNETYLDTVTEEMTKILEYFCELQFKENAVPVVKTSKSCNKRRGAVHALV
IRESfinder result
IRESfinder score
0.766894947
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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