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mmu_circNfasc_898
Basic information of circular RNA
PanCircBase ID:
mmu_circNfasc_898
mm39_Chr. Position ID:
chr1|132501507|132523395|-
Gene name:
Nfasc
Transcript:
ENSMUST00000094569.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
29,28,27,26,25,24,23
Exon/intron offsets:
0,2516,9225,10594,14304,19581,21714
Genomic length:
21888
Exon/intron sizes in nt:
70,13,21,53,11,72,37,10,000
Flanking exon/introns:
chr1:132498389-132501507|chr1:132523395-132524263
Splice length:
898
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTAATGGAACCAAACTGGGAAAGCAGATGGTGGAAAACTTCTCTCCCAATCAGACCAAGTTCTCTGTGCAGAGAGCAGACCCAGTGTCGCGTTACCGCTTCTCCCTCAGTGCCAGGACACAGGTGGGCTCTGGAGAAGCAGCCACAGAGGAGTCCCCAGCACCTCCAAATGAAGCTACTCCAACTGCAGCTCCTCCCACGTTGCCCCCGACTACTGTGGGTACCACAGGCCTTGTGAGCAGTACTGATGCTACTGCCCTTGCTGCCACCAGTGAAGCCACAACAGTTCCCATCATTCCAACCGTCGTACCTACCACCGTCGCCACCACCATTGCCACAACTACTACAACCACTGCCGCCACCACCACCACCACCACTACGGAGAGCCCTCCCACTACCACTGCTGGGACTAAGATTCACGAAACCGCCCCCGACGAGCAGTCCATTTGGAACGTCACAGTGCTCCCCAACAGTAAATGGGCCAACATCACCTGGAAGCACAATTTCAGGCCTGGAACTGACTTTGTGGTTGAGTACATCGACAGCAACCATACGAAAAAAACTGTCCCTGTTAAGGCCCAGGCCCAGCCTATACAGCTGACAGACCTCTTTCCCGGGATGACGTACACGTTGCGGGTGTATTCCCGGGACAACGAGGGCATCAGCAGTACCGTCATCACCTTTATGACCAGTACAGCTTACACCAATAACCAGGCAGACATCGCCACCCAGGGCTGGTTCATCGGGCTCATGTGTGCCATTGCCCTTCTGGTGCTGATCCTTCTCATCGTCTGCTTCATCAAGAGGAGTCGAGGTGGCAAGTACCCAGTGCGGGAAAAGAAGGATGTCCCCTTGGGTCCTGAAGACCCCAAAGAAGAAGATGGCTCATTTGACTACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGGATGTCCCCTTGGGT
60.18
GACACTGGGTCTGCTCTCTG
59.75
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTGCGGGAAAAGAAGGA
60.25
GACACTGGGTCTGCTCTCTG
59.75
162
PCR template sequence:
TCAAGAGGAGTCGAGGTGGCAAGTACCCAGTGCGGGAAAAGAAGGATGTCCCCTTGGGTCCTGAAGACCCCAAAGAAGAAGATGGCTCATTTGACTACAGTTAATGGAACCAAACTGGGAAAGCAGATGGTGGAAAACTTCTCTCCCAATCAGACCAAGTTCTCTGTGCAGAGAGCAGACCCAGTGTCGCGTTACCGCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-434-5p(1), mmu-miR-705(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CATTTGACTACAGTTAATGGAACCAA
siRNA sets
TTGGTTCCATTAACTGTAG, GTTCCATTAACTGTAGTCA, TTCCATTAACTGTAGTCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNFASC_898_ORF_1
1.2906
0.377186358
0.996009589
951
ORF sequence:
ATGTCCCCTTGGGTCCTGAAGACCCCAAAGAAGAAGATGGCTCATTTGACTACAGTTAATGGAACCAAACTGGGAAAGCAGATGGTGGAAAACTTCTCTCCCAATCAGACCAAGTTCTCTGTGCAGAGAGCAGACCCAGTGTCGCGTTACCGCTTCTCCCTCAGTGCCAGGACACAGGTGGGCTCTGGAGAAGCAGCCACAGAGGAGTCCCCAGCACCTCCAAATGAAGCTACTCCAACTGCAGCTCCTCCCACGTTGCCCCCGACTACTGTGGGTACCACAGGCCTTGTGAGCAGTACTGATGCTACTGCCCTTGCTGCCACCAGTGAAGCCACAACAGTTCCCATCATTCCAACCGTCGTACCTACCACCGTCGCCACCACCATTGCCACAACTACTACAACCACTGCCGCCACCACCACCACCACCACTACGGAGAGCCCTCCCACTACCACTGCTGGGACTAAGATTCACGAAACCGCCCCCGACGAGCAGTCCATTTGGAACGTCACAGTGCTCCCCAACAGTAAATGGGCCAACATCACCTGGAAGCACAATTTCAGGCCTGGAACTGACTTTGTGGTTGAGTACATCGACAGCAACCATACGAAAAAAACTGTCCCTGTTAAGGCCCAGGCCCAGCCTATACAGCTGACAGACCTCTTTCCCGGGATGACGTACACGTTGCGGGTGTATTCCCGGGACAACGAGGGCATCAGCAGTACCGTCATCACCTTTATGACCAGTACAGCTTACACCAATAACCAGGCAGACATCGCCACCCAGGGCTGGTTCATCGGGCTCATGTGTGCCATTGCCCTTCTGGTGCTGATCCTTCTCATCGTCTGCTTCATCAAGAGGAGTCGAGGTGGCAAGTACCCAGTGCGGGAAAAGAAGGATGTCCCCTTGGGTCCTGAAGACCCCAAAGAAGAAGATGGCTCATTTGACTAC
Peptide sequence:
MSPWVLKTPKKKMAHLTTVNGTKLGKQMVENFSPNQTKFSVQRADPVSRYRFSLSARTQVGSGEAATEESPAPPNEATPTAAPPTLPPTTVGTTGLVSSTDATALAATSEATTVPIIPTVVPTTVATTIATTTTTTAATTTTTTTESPPTTTAGTKIHETAPDEQSIWNVTVLPNSKWANITWKHNFRPGTDFVVEYIDSNHTKKTVPVKAQAQPIQLTDLFPGMTYTLRVYSRDNEGISSTVITFMTSTAYTNNQADIATQGWFIGLMCAIALLVLILLIVCFIKRSRGGKYPVREKKDVPLGPEDPKEEDGSFDY
IRESfinder result
IRESfinder score
0.502262069
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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