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mmu_circ2210408I21Rik_971
Basic information of circular RNA
PanCircBase ID:
mmu_circ2210408I21Rik_971
mm39_Chr. Position ID:
chr13|77322971|77341342|+
Gene name:
2210408I21Rik
Transcript:
ENSMUST00000168779.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,8748,17701
Genomic length:
18371
Exon/intron sizes in nt:
13,21,69,670
Flanking exon/introns:
chr13:77283749-77322971|chr13:77341342-77393319
Splice length:
971
Other database IDs:
circBase: mmu_circ_0004808, CIRCpedia: MMU_CIRCpedia_29566, circAtlas: mmu-2210408I21Rik_0001
circBase: hsa_circ_0130033, circAtlas: hsa-KIAA0825_0001, CIRCpedia: HSA_CIRCpedia_123574
Human Ortholog IDs:
Mature spliced Sequence:
AATGGATGCATTACAGGAATATTCCCATAATTCATTTGACCTGCAGTGTCTGTTAAATTCGTTTCCCGGAGATTTGGAGTTTAAGCAGATCTTCAGTGACATTGGAGAACAGATGGAGCAAAATGCTGCAAGTATAGAACATTGCATTGAAGAAATACAGTCTGAAGTAAACAAGCTCTGTCCAGATGCACAGCTACAAACAACAAGTGACTGCTTCAAATGGCTAACTAGTTATAATTATAATTTATCTAAGTCACCATCCATTTCCCATGGAGATTTAATAAACTTCCTCAAAACAATGAAAGATTTATTGAATAATGAAGACAACCATGAAGAAATGATTCTGGATTTACTCTGGGACCTCTCCTGTCAAAGCAGCATCTCTTTCCTGTCCTCTCTGGGTGGGACAACCTTCTGTCACCTGTCCAGGACTTCCATACATTCTGTTGAAGATTTCTCCTCTGTGGATGTCAAGTCTGTTTGGGATGATGTAAGATTACATCTTCGACGATTCTTAGTAAACAGGTTAGAAAGATATAATGAGATAAACAATTCACAGCAAAAAATTGAACTGAAAAGTCAATGTATGAAGCAATTCCTCTTGCTCTACTCAGAATCAGAAGTGCTTGTCAAGTACCAAAGCATCCAGAAGAGACTGCTGGATACATTTCTGCAAGACTCCTTTCCTTCGTGCAACAGAGAATCAGATTTAGAAAGAATTGTGTGTGGATACCAAAGTACTATGCTCATGTTATATTCAATGATAAAAGAGGATTTTAATGTACTATGTGAAATTTTAGCTCCATCATCACTGGTGCAGTTCTTTAATGAAACTTACCTGGATACGGTTACAGAAGAAATGACAAAAATTCTTGAATATTTTTGTGAGCTGCAGTTCAAAGAAAATGCTGTTCCTGTAGTTAAAACAAGCAAGAGCTGCAACAAGCGCAGAGGAGCAGTGCATGCTTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAGCTGCAGTTCAAAGA
57.67
ACTCCAAATCTCCGGGAAACG
60.34
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAGCTGCAGTTCAAAGA
57.67
CTCCAAATCTCCGGGAAACG
58.63
167
PCR template sequence:
CTTGAATATTTTTGTGAGCTGCAGTTCAAAGAAAATGCTGTTCCTGTAGTTAAAACAAGCAAGAGCTGCAACAAGCGCAGAGGAGCAGTGCATGCTTTGGAATGGATGCATTACAGGAATATTCCCATAATTCATTTGACCTGCAGTGTCTGTTAAATTCGTTTCCCGGAGATTTGGAGTTTAAGCAGATCTTCAGTGAC
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-9-5p(1), mmu-miR-206-3p(1), mmu-miR-298-5p(1), mmu-miR-136-5p(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
GTGCATGCTTTGGAATGGATGCATTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2210408I21RIK_971_ORF_1
0.5933
-0.027608064
0.95713457
1026
ORF sequence:
ATGGATGCATTACAGGAATATTCCCATAATTCATTTGACCTGCAGTGTCTGTTAAATTCGTTTCCCGGAGATTTGGAGTTTAAGCAGATCTTCAGTGACATTGGAGAACAGATGGAGCAAAATGCTGCAAGTATAGAACATTGCATTGAAGAAATACAGTCTGAAGTAAACAAGCTCTGTCCAGATGCACAGCTACAAACAACAAGTGACTGCTTCAAATGGCTAACTAGTTATAATTATAATTTATCTAAGTCACCATCCATTTCCCATGGAGATTTAATAAACTTCCTCAAAACAATGAAAGATTTATTGAATAATGAAGACAACCATGAAGAAATGATTCTGGATTTACTCTGGGACCTCTCCTGTCAAAGCAGCATCTCTTTCCTGTCCTCTCTGGGTGGGACAACCTTCTGTCACCTGTCCAGGACTTCCATACATTCTGTTGAAGATTTCTCCTCTGTGGATGTCAAGTCTGTTTGGGATGATGTAAGATTACATCTTCGACGATTCTTAGTAAACAGGTTAGAAAGATATAATGAGATAAACAATTCACAGCAAAAAATTGAACTGAAAAGTCAATGTATGAAGCAATTCCTCTTGCTCTACTCAGAATCAGAAGTGCTTGTCAAGTACCAAAGCATCCAGAAGAGACTGCTGGATACATTTCTGCAAGACTCCTTTCCTTCGTGCAACAGAGAATCAGATTTAGAAAGAATTGTGTGTGGATACCAAAGTACTATGCTCATGTTATATTCAATGATAAAAGAGGATTTTAATGTACTATGTGAAATTTTAGCTCCATCATCACTGGTGCAGTTCTTTAATGAAACTTACCTGGATACGGTTACAGAAGAAATGACAAAAATTCTTGAATATTTTTGTGAGCTGCAGTTCAAAGAAAATGCTGTTCCTGTAGTTAAAACAAGCAAGAGCTGCAACAAGCGCAGAGGAGCAGTGCATGCTTTGGAATGGATGCATTACAGGAATATTCCCATAATTCATTTGACCTGCAGTGTCTGTTAA
Peptide sequence:
MDALQEYSHNSFDLQCLLNSFPGDLEFKQIFSDIGEQMEQNAASIEHCIEEIQSEVNKLCPDAQLQTTSDCFKWLTSYNYNLSKSPSISHGDLINFLKTMKDLLNNEDNHEEMILDLLWDLSCQSSISFLSSLGGTTFCHLSRTSIHSVEDFSSVDVKSVWDDVRLHLRRFLVNRLERYNEINNSQQKIELKSQCMKQFLLLYSESEVLVKYQSIQKRLLDTFLQDSFPSCNRESDLERIVCGYQSTMLMLYSMIKEDFNVLCEILAPSSLVQFFNETYLDTVTEEMTKILEYFCELQFKENAVPVVKTSKSCNKRRGAVHALEWMHYRNIPIIHLTCSVC
IRESfinder result
IRESfinder score
0.780867405
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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