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mmu_circNfe2l1_1281
Basic information of circular RNA
PanCircBase ID:
mmu_circNfe2l1_1281
mm39_Chr. Position ID:
chr11|96710220|96712235|-
Gene name:
Nfe2l1
Transcript:
ENSMUST00000107659.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,1856
Genomic length:
2015
Exon/intron sizes in nt:
11,22,159
Flanking exon/introns:
chr11:96708756-96710220|chr11:96712235-96712929
Splice length:
1281
Other database IDs:
circAtlas: mmu-Nfe2l1_0013
Human Ortholog IDs:
Mature spliced Sequence:
TTCCCAGCTGACGTTTCCAGCATCCCAGAAGCAGTGCCTAGTGAGAGTGAGTCCCCCGCCCTTCAGAACAGCCTTCTATCTCCTCTTCTGACGGGGACAGAATCACCATTTGATTTGGAACAGCAGTGGCAAGATCTCATGTCCATCATGGAAATGCAGGCTATGGAAGTAAATACATCAGCAAGTGAGATTCTGTACAATGCCCCTCCTGGAGACCCTCTTAGCACCAACTACAGCCTTGCACCCAACACTCCCATCAATCAGAATGTCAGCCTGCATCAGGCGTCCCTGGGGGGCTGCAGTCAGGACTTCTCCCTCTTCAGCCCCGAGGTGGAGAGCCTGCCTGTGGCTAGCAGCTCCACACTGCTTCCACTCGTCCCCAGCAACTCCACCAGTCTCAACTCCACCTTTGGCTCTACCAACCTAGCAGGGCTTTTCTTTCCATCCCAGCTCAATGGCACAGCCAATGACACATCAGGCCCTGAGCTACCTGACCCCCTTGGGGGCCTGTTAGACGAAGCTATGCTGGATGAGATCAGCCTGATGGACCTGGCCATTGAGGAGGGCTTCAACCCGGTGCAGGCTTCCCAGCTCGAAGAGGAGTTTGACTCTGACTCAGGCCTCTCCTTGGACTCCAGCCATAGCCCTTCCTCTCTGAGCAGCTCTGAAGGGAGCTCTTCTTCTTCCTCCTCCTCCTCTTCCTCTTCTGCTTCCTCCTCTGCCTCTTCTTCCTTCTCTGAGGAGGGTGCTGTTGGTTACAGCTCTGACTCTGAGACCCTAGACCTAGAAGAGGCTGAGGGTGCAGTGGGCTACCAGCCGGAATACTCCAAGTTCTGCCGCATGAGCTATCAGGATCCTTCTCAGCTCTCTTGCCTTCCCTACTTAGAGCATGTGGGCCACAATCATACATACAATATGGCACCCAGTGCCCTTGACTCTGCTGATCTACCACCACCCAGCACCCTCAAGAAAGGTAGCAAGGAAAAGCAGGCTGACTTCCTGGACAAGCAGATGAGCCGAGATGAGCACAGAGCCCGAGCCATGAAGATCCCATTCACCAATGACAAGATCATCAACCTGCCTGTAGAAGAATTCAATGAGCTGCTGTCCAAATACCAGCTGAGCGAGGCCCAGCTCAGCCTCATCCGGGATATCCGGCGCCGGGGCAAAAACAAGATGGCTGCACAGAACTGCCGCAAGCGCAAGTTGGACACCATCCTAAACCTAGAACGTGATGTGGAGGACTTGCAGCGAGATAAGGCCCGATTGCTTCGAGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTGATGTGGAGGACTTGCA
60.32
GTCCCCGTCAGAAGAGGAGA
60.32
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGTGATGTGGAGGACTTGC
60.32
GTCCCCGTCAGAAGAGGAGA
60.32
150
PCR template sequence:
TGCACAGAACTGCCGCAAGCGCAAGTTGGACACCATCCTAAACCTAGAACGTGATGTGGAGGACTTGCAGCGAGATAAGGCCCGATTGCTTCGAGAAAAGTTCCCAGCTGACGTTTCCAGCATCCCAGAAGCAGTGCCTAGTGAGAGTGAGTCCCCCGCCCTTCAGAACAGCCTTCTATCTCCTCTTCTGACGGGGACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-31-5p(1), mmu-let-7c-5p(1), mmu-miR-298-5p(1), mmu-miR-216a-5p(1), mmu-miR-709(1), mmu-miR-297a-5p(1), mmu-miR-98-5p(1), mmu-miR-1198-5p(1), mmu-miR-484(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTCGAGAAAAGTTCCCAGCTGACG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNFE2L1_1281_ORF_1
0.9882
0.411245965
0.999999849
2424
ORF sequence:
ATGTCCATCATGGAAATGCAGGCTATGGAAGTAAATACATCAGCAAGTGAGATTCTGTACAATGCCCCTCCTGGAGACCCTCTTAGCACCAACTACAGCCTTGCACCCAACACTCCCATCAATCAGAATGTCAGCCTGCATCAGGCGTCCCTGGGGGGCTGCAGTCAGGACTTCTCCCTCTTCAGCCCCGAGGTGGAGAGCCTGCCTGTGGCTAGCAGCTCCACACTGCTTCCACTCGTCCCCAGCAACTCCACCAGTCTCAACTCCACCTTTGGCTCTACCAACCTAGCAGGGCTTTTCTTTCCATCCCAGCTCAATGGCACAGCCAATGACACATCAGGCCCTGAGCTACCTGACCCCCTTGGGGGCCTGTTAGACGAAGCTATGCTGGATGAGATCAGCCTGATGGACCTGGCCATTGAGGAGGGCTTCAACCCGGTGCAGGCTTCCCAGCTCGAAGAGGAGTTTGACTCTGACTCAGGCCTCTCCTTGGACTCCAGCCATAGCCCTTCCTCTCTGAGCAGCTCTGAAGGGAGCTCTTCTTCTTCCTCCTCCTCCTCTTCCTCTTCTGCTTCCTCCTCTGCCTCTTCTTCCTTCTCTGAGGAGGGTGCTGTTGGTTACAGCTCTGACTCTGAGACCCTAGACCTAGAAGAGGCTGAGGGTGCAGTGGGCTACCAGCCGGAATACTCCAAGTTCTGCCGCATGAGCTATCAGGATCCTTCTCAGCTCTCTTGCCTTCCCTACTTAGAGCATGTGGGCCACAATCATACATACAATATGGCACCCAGTGCCCTTGACTCTGCTGATCTACCACCACCCAGCACCCTCAAGAAAGGTAGCAAGGAAAAGCAGGCTGACTTCCTGGACAAGCAGATGAGCCGAGATGAGCACAGAGCCCGAGCCATGAAGATCCCATTCACCAATGACAAGATCATCAACCTGCCTGTAGAAGAATTCAATGAGCTGCTGTCCAAATACCAGCTGAGCGAGGCCCAGCTCAGCCTCATCCGGGATATCCGGCGCCGGGGCAAAAACAAGATGGCTGCACAGAACTGCCGCAAGCGCAAGTTGGACACCATCCTAAACCTAGAACGTGATGTGGAGGACTTGCAGCGAGATAAGGCCCGATTGCTTCGAGAAAAGTTCCCAGCTGACGTTTCCAGCATCCCAGAAGCAGTGCCTAGTGAGAGTGAGTCCCCCGCCCTTCAGAACAGCCTTCTATCTCCTCTTCTGACGGGGACAGAATCACCATTTGATTTGGAACAGCAGTGGCAAGATCTCATGTCCATCATGGAAATGCAGGCTATGGAAGTAAATACATCAGCAAGTGAGATTCTGTACAATGCCCCTCCTGGAGACCCTCTTAGCACCAACTACAGCCTTGCACCCAACACTCCCATCAATCAGAATGTCAGCCTGCATCAGGCGTCCCTGGGGGGCTGCAGTCAGGACTTCTCCCTCTTCAGCCCCGAGGTGGAGAGCCTGCCTGTGGCTAGCAGCTCCACACTGCTTCCACTCGTCCCCAGCAACTCCACCAGTCTCAACTCCACCTTTGGCTCTACCAACCTAGCAGGGCTTTTCTTTCCATCCCAGCTCAATGGCACAGCCAATGACACATCAGGCCCTGAGCTACCTGACCCCCTTGGGGGCCTGTTAGACGAAGCTATGCTGGATGAGATCAGCCTGATGGACCTGGCCATTGAGGAGGGCTTCAACCCGGTGCAGGCTTCCCAGCTCGAAGAGGAGTTTGACTCTGACTCAGGCCTCTCCTTGGACTCCAGCCATAGCCCTTCCTCTCTGAGCAGCTCTGAAGGGAGCTCTTCTTCTTCCTCCTCCTCCTCTTCCTCTTCTGCTTCCTCCTCTGCCTCTTCTTCCTTCTCTGAGGAGGGTGCTGTTGGTTACAGCTCTGACTCTGAGACCCTAGACCTAGAAGAGGCTGAGGGTGCAGTGGGCTACCAGCCGGAATACTCCAAGTTCTGCCGCATGAGCTATCAGGATCCTTCTCAGCTCTCTTGCCTTCCCTACTTAGAGCATGTGGGCCACAATCATACATACAATATGGCACCCAGTGCCCTTGACTCTGCTGATCTACCACCACCCAGCACCCTCAAGAAAGGTAGCAAGGAAAAGCAGGCTGACTTCCTGGACAAGCAGATGAGCCGAGATGAGCACAGAGCCCGAGCCATGAAGATCCCATTCACCAATGACAAGATCATCAACCTGCCTGTAGAAGAATTCAATGAGCTGCTGTCCAAATACCAGCTGAGCGAGGCCCAGCTCAGCCTCATCCGGGATATCCGGCGCCGGGGCAAAAACAAGATGGCTGCACAGAACTGCCGCAAGCGCAAGTTGGACACCATCCTAAACCTAGAACGTGATGTGGAGGACTTGCAGCGAGATAAGGCCCGATTGCTTCGAGAAAAG
Peptide sequence:
MSIMEMQAMEVNTSASEILYNAPPGDPLSTNYSLAPNTPINQNVSLHQASLGGCSQDFSLFSPEVESLPVASSSTLLPLVPSNSTSLNSTFGSTNLAGLFFPSQLNGTANDTSGPELPDPLGGLLDEAMLDEISLMDLAIEEGFNPVQASQLEEEFDSDSGLSLDSSHSPSSLSSSEGSSSSSSSSSSSSASSSASSSFSEEGAVGYSSDSETLDLEEAEGAVGYQPEYSKFCRMSYQDPSQLSCLPYLEHVGHNHTYNMAPSALDSADLPPPSTLKKGSKEKQADFLDKQMSRDEHRARAMKIPFTNDKIINLPVEEFNELLSKYQLSEAQLSLIRDIRRRGKNKMAAQNCRKRKLDTILNLERDVEDLQRDKARLLREKFPADVSSIPEAVPSESESPALQNSLLSPLLTGTESPFDLEQQWQDLMSIMEMQAMEVNTSASEILYNAPPGDPLSTNYSLAPNTPINQNVSLHQASLGGCSQDFSLFSPEVESLPVASSSTLLPLVPSNSTSLNSTFGSTNLAGLFFPSQLNGTANDTSGPELPDPLGGLLDEAMLDEISLMDLAIEEGFNPVQASQLEEEFDSDSGLSLDSSHSPSSLSSSEGSSSSSSSSSSSSASSSASSSFSEEGAVGYSSDSETLDLEEAEGAVGYQPEYSKFCRMSYQDPSQLSCLPYLEHVGHNHTYNMAPSALDSADLPPPSTLKKGSKEKQADFLDKQMSRDEHRARAMKIPFTNDKIINLPVEEFNELLSKYQLSEAQLSLIRDIRRRGKNKMAAQNCRKRKLDTILNLERDVEDLQRDKARLLREK
IRESfinder result
IRESfinder score
0.538012041
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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