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mmu_circLrrcc1_642
Basic information of circular RNA
PanCircBase ID:
mmu_circLrrcc1_642
mm39_Chr. Position ID:
chr3|14612306|14616587|+
Gene name:
Lrrcc1
Transcript:
ENSMUST00000108370.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,861,3004,4141
Genomic length:
4281
Exon/intron sizes in nt:
1,48,14,92,05,140
Flanking exon/introns:
chr3:14610752-14612306|chr3:14616587-14619363
Splice length:
642
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222700, circAtlas: mmu-Lrrcc1_0012
circAtlas: hsa-LRRCC1_0032, CIRCpedia: HSA_CIRCpedia_151388
Human Ortholog IDs:
Mature spliced Sequence:
TTGTAATCGTAAAATGAGACAGCCTTACCTTAGAGATTTATATGTAAGATCATCTTTAGTAAACTGTAATAACTTACGAGACTTAGATGAGCAGAAGACTGGCGTAATTAAAGTAGACAAGAACTTCTCGGACAACAGCACCTACCGGTCCCTCGTGGAACAGTTAGACCAAGAGAGAGAGATGCGGTGGAAAGCTGAGCAAACGGAAAAGAAACTTATGGATTATATCGATGAGCTACATAAGCAAGCAGATGAGAAAAAAGATGTTCACAGCCAGGCTCTCATTACCACAGATAGACTAAAGGATGCTATTTTTAAGGAGAGACATTGCAAGGCTCAACTTGAAATTATAGTTCACAGACTTCAAAATGAAGTTAAAAAACTAACTATTGAATTAATGAAAGCGCGAGATCAACAGGAAGATCACATCAGACACCTGAGAACCCTGGAAAGGGCATTGGAAAAAATGGAGAAGCAGAAAGCACAGCAGCAGGCGGCACAGATAAGACTGATCCAAGAGGTGGAGCTCAAAGCCTCAGCTGCTGATCGAGAAATAAACTTACTTCGAACTTCTCTTCACCAAGAAAAGCAGCAAGTGCAACAACTTCATGAACTTCTGGCGTTGAAAGAGCAGGAACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACCAAGAAAAGCAGCAAGTG
59.9
GTCTTCTGCTCATCTAAGTCTCGT
59.9
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACCAAGAAAAGCAGCAAGTG
59.9
TCTTCTGCTCATCTAAGTCTCGT
58.73
164
PCR template sequence:
CTGATCGAGAAATAAACTTACTTCGAACTTCTCTTCACCAAGAAAAGCAGCAAGTGCAACAACTTCATGAACTTCTGGCGTTGAAAGAGCAGGAACACAGTTGTAATCGTAAAATGAGACAGCCTTACCTTAGAGATTTATATGTAAGATCATCTTTAGTAAACTGTAATAACTTACGAGACTTAGATGAGCAGAAGACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGCAGGAACACAGTTGTAATCGTAAA
siRNA sets
TTTACGATTACAACTGTGT,TTACAACTGTGTTCCTGCT,TTACGATTACAACTGTGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLRRCC1_642_ORF_1
1.1356
0.169877627
0.998759223
1269
ORF sequence:
ATGAGACAGCCTTACCTTAGAGATTTATATGTAAGATCATCTTTAGTAAACTGTAATAACTTACGAGACTTAGATGAGCAGAAGACTGGCGTAATTAAAGTAGACAAGAACTTCTCGGACAACAGCACCTACCGGTCCCTCGTGGAACAGTTAGACCAAGAGAGAGAGATGCGGTGGAAAGCTGAGCAAACGGAAAAGAAACTTATGGATTATATCGATGAGCTACATAAGCAAGCAGATGAGAAAAAAGATGTTCACAGCCAGGCTCTCATTACCACAGATAGACTAAAGGATGCTATTTTTAAGGAGAGACATTGCAAGGCTCAACTTGAAATTATAGTTCACAGACTTCAAAATGAAGTTAAAAAACTAACTATTGAATTAATGAAAGCGCGAGATCAACAGGAAGATCACATCAGACACCTGAGAACCCTGGAAAGGGCATTGGAAAAAATGGAGAAGCAGAAAGCACAGCAGCAGGCGGCACAGATAAGACTGATCCAAGAGGTGGAGCTCAAAGCCTCAGCTGCTGATCGAGAAATAAACTTACTTCGAACTTCTCTTCACCAAGAAAAGCAGCAAGTGCAACAACTTCATGAACTTCTGGCGTTGAAAGAGCAGGAACACAGTTGTAATCGTAAAATGAGACAGCCTTACCTTAGAGATTTATATGTAAGATCATCTTTAGTAAACTGTAATAACTTACGAGACTTAGATGAGCAGAAGACTGGCGTAATTAAAGTAGACAAGAACTTCTCGGACAACAGCACCTACCGGTCCCTCGTGGAACAGTTAGACCAAGAGAGAGAGATGCGGTGGAAAGCTGAGCAAACGGAAAAGAAACTTATGGATTATATCGATGAGCTACATAAGCAAGCAGATGAGAAAAAAGATGTTCACAGCCAGGCTCTCATTACCACAGATAGACTAAAGGATGCTATTTTTAAGGAGAGACATTGCAAGGCTCAACTTGAAATTATAGTTCACAGACTTCAAAATGAAGTTAAAAAACTAACTATTGAATTAATGAAAGCGCGAGATCAACAGGAAGATCACATCAGACACCTGAGAACCCTGGAAAGGGCATTGGAAAAAATGGAGAAGCAGAAAGCACAGCAGCAGGCGGCACAGATAAGACTGATCCAAGAGGTGGAGCTCAAAGCCTCAGCTGCTGATCGAGAAATAAACTTACTTCGAACTTCTCTTCACCAAGAAAAGCAGCAAGTGCAACAACTTCATGAACTTCTGGCGTTGAAAGAGCAGGAACAC
Peptide sequence:
MRQPYLRDLYVRSSLVNCNNLRDLDEQKTGVIKVDKNFSDNSTYRSLVEQLDQEREMRWKAEQTEKKLMDYIDELHKQADEKKDVHSQALITTDRLKDAIFKERHCKAQLEIIVHRLQNEVKKLTIELMKARDQQEDHIRHLRTLERALEKMEKQKAQQQAAQIRLIQEVELKASAADREINLLRTSLHQEKQQVQQLHELLALKEQEHSCNRKMRQPYLRDLYVRSSLVNCNNLRDLDEQKTGVIKVDKNFSDNSTYRSLVEQLDQEREMRWKAEQTEKKLMDYIDELHKQADEKKDVHSQALITTDRLKDAIFKERHCKAQLEIIVHRLQNEVKKLTIELMKARDQQEDHIRHLRTLERALEKMEKQKAQQQAAQIRLIQEVELKASAADREINLLRTSLHQEKQQVQQLHELLALKEQEH
IRESfinder result
IRESfinder score
0.544483666
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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