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mmu_circNbea_3331
Basic information of circular RNA
PanCircBase ID:
mmu_circNbea_3331
mm39_Chr. Position ID:
chr3|55841933|55917064|-
Gene name:
Nbea
Transcript:
ENSMUST00000029374.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
34,33,32,31,30,29,28,27,26,25,24,23,22,21,20,19
Exon/intron offsets:
0,18523,20826,33399,49237,51097,53455,56525,57821,59535,65974,68211,70021,73723,74704,75049
Genomic length:
75131
Exon/intron sizes in nt:
128,127,155,439,96,169,108,131,181,9,154,218,1017,193,124,82
Flanking exon/introns:
chr3:55799095-55841933|chr3:55917064-55926786
Splice length:
3331
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219996, circAtlas: mmu-Nbea_0020
circBase: hsa_circ_0100340, circAtlas: hsa-NBEA_0147, CIRCpedia: HSA_CIRCpedia_142223
Human Ortholog IDs:
Mature spliced Sequence:
ATCTTGACAGAGCAAGTCTGTACTCAAGTTGTGCATAAACCACACCCGGAGCCAGACTCCACAGTCAAAATCCAGAATCCAATGATTCTTAAGGTGGTGGCAACTTTGTTAAAGAACTCAACACCAAGTGCAGAATTGATGGAAGTCCGTCGGCTGTTTTTATCCGACATGATTAAGCTTTTCAGTAACAGCCGTGAAAATAGAAGATGCTTACTGCAATGTTCAGTGTGGCAGGACTGGATGTTTTCTCTTGGCTATATCAATCCAAAAAGTTCTGAGGAACAGAAGATTACTGAGATGGTCTACAACATTTTCCGGATTCTTTTGTATCATGCAATAAAATATGAATGGGGAGGCTGGAGAGTCTGGGTGGACACACTCTCAATAGCCCATTCCAAGGTTACTTACGAAGCACACAAAGAGTACCTGGCCAAAATGTATGAGGAGTACCAGCGACAAGAGGAGGAGAACATTAAGAAAGGAAAGAAAGGAAATGTGAGCACCATCTCTGGTCTCTCATCACAGACAGCAGGAGCAAAAGGAGGAATGGAAATCCGGGAGATAGAAGACCTTTCCCAAAGCCAGAGCCCAGAGAGTGAGACAGACTACCCAGTCAGCACAGATACACGAGACTTGCTCATGTCAACCAAAGTATCAGATGATATTCTTGGAAGTTCAGATAGGCCTGGCAGTGGAGTGCACGTAGAAGTGCATGATCTTCTAGTTGACATAAAAGCAGAGAAAGTGGAAGCCACAGAAGTAAAGCTTGATGATATGGACTTGTCACCAGAGACATTGGTGGGTGGAGAGAATGGTGCCCTTGTGGAAGTGGAGTCCTTGTTGGATAATGTGTATAGTGCTGCTGTAGAGAAACTCCAGAACAATGTGCATGGAAGTGTGGGTATCATTAAAAAAAACGAAGAGAAAGACAACGGCCCGTTGATCACGCTAGCAGATGAGAAGGAGGAGCTTCCAAACAGTAGCACACCCTTCCTCTTTGATAAAATACCCAGACAGGAAGAGAAATTACTTCCAGAACTTTCTAGCAATCACATCATCCCAAATATTCAGGATACCCAAGTACATCTTGGTGTCAGTGATGATCTTGGGTTGCTTGCTCACATGACTGCGAGTGTAGAGTTAACGTGCACATCAAGCATAATGGAAGAGAAAGACTTCAGAATTCATACGACGTCAGATGGAGTGAGCAGTGTCTCTGAACGAGAGTTAGCATCGTCAACTAAGGGGTTAGACTATGCGGAAATGACTGCCACAACTTTGGAAACAGAGTCTTCCAATAGCAAAGCTGTACCAAATGTTGATGCAGGAAGTATAATTTCAGACACTGAGCGATCTGATGATGGCAAAGAATCGGGAAAGGAAATCCGAAAAATCCAGACCACTGCTACAACACAAGCTGTCCAGGGCCGGTCTTCCACCCAGCAAGACCGAGATCTCAGAGTCGATTTAGGATTCCGAGGGATGCCAATGACTGAGGAACAGCGGCGCCAGTTCAGCCCTGGCCCCCGGACCACCATGTTTCGGATCCCTGAGTTTAAGTGGTCTCCGATGCACCAGAGACTGCTCACTGATCTGTTGTTTGCATTAGAGACAGATGTGCATGTGTGGAGAAGCCATTCTACAAAGTCTGTAATGGATTTTGTCAACAGCAATGAAAACATTATATTTGTACATAACACAATTCACCTCATTTCCCAAATGGTAGACAACATCATCATTGCCTGTGGAGGAATTTTACCTTTGCTCTCAGCAGCTACATCGCCAACTGGTTCTAAGACTGAATTGGAAAACATTGAAGTGACACAAGGCATGTCAGCAGAGACAGCAGTGACGTTTCTCAGCCGACTCATGGCAATGGTTGATGTCCTTGTGTTTGCCAGCTCTCTAAATTTTAGTGAGATTGAAGCTGAAAAAAACATGTCCTCTGGAGGGCTAATGAGACAGTGCCTGCGGCTAGTTTGTTGTGTAGCTGTGAGAAACTGTTTAGAATGCCGACAGAGACAGAGAGACAGGGGAAGCAAATCTTCCCACGGAAGCAGCAAACCTCAGGAAGCTCCCCACAGTGTGACTGCCGCATCCGCATCCAAGACTCCTTTAGAAAACGTTCCAGGTAACCTTTCTCCCATCAAGGATCCCGATAGGCTTCTTCAGGATGTTGATATCAATCGCCTTCGTGCTGTTGTCTTTCGAGATGTGGATGATAGCAAGCAGGCACAATTCTTAGCCCTGGCTGTTGTTTACTTTATTTCTGTTCTGATGGTATCGAAGTATCGGGACATATTAGAACCCCAGAGAGAGACTGCAAGAACTGGAAGCCAACCAGGTAGAAATATCAGACAAGAAATAAATTCACCAACTAGTACAGTTGTGGTCATACCATCTATCCCTCATCCAAGTTTGAACCATGGACTCCTTGCCAAGCTGATGCCTGAGCAGAGTTTTGCCCACTCATTTTATAAAGAAACACCTGCTACATTTCCAGACACTGTAAAGGAGAAGGAAACACCAACCCCTGGTGAAGATATTCAGCTAGAAAGTTCAGTTCCTCACACAGATTCCGGAATGGGAGAGGAGCAAGTAGCTAGCATCCTGGATGGGGCAGAGCTGGAGCCTGCTGCAGGTCCTGATGCAATGAGTGAACTTTTATCCACTTTGTCATCAGAAGTAAAGAAATCACAGGAGAGCTTAACTGAACATCCCAGTGAAATGCTGAAGCCTGCACCGTCCATATCTAGCATTAGTCAAACCAAAGGTATTAATGTGAAGGAGATACTAAAAAGTCTTGTGGCTGCCCCAGTTGAGATTGCTGAGTGTGGCCCTGAGCCTATTCCATACCCAGATCCGGCACTGAAGAGAGAAGCACACGCTATTCTTCCTATGCAGTTCCATTCCTTTGACAGGAGTGTGGTGGTACCTGTAAAGAAGCCGCCTCCAGGTAGTCTAGCTGTCACCACGGTGGGAGCCACTGCTGCAGGAAGTGGGCTGCCAACAGGCAGCACCTCAAGTATATTTGCTGCCCCTGGAGCTACACCAAAAAGTATGATTAACACGACAGGTGCTGTGGATTCAGGGTCCTCCTCCTCTTCCTCCTCTTCTAGTTTTGTTAATGGTGCTACCAGCAAAAATCTTCCAGCTGTACAAACCGTAGCCCCAATGCCAGAAGATTCAGCTGAGAACATGAGCATCACTGCAAAACTTGAAAGAGCTTTAGAAAAAGTTGCTCCTCTTCTTCGTGAAATTTTTGTAGACTTTGCCCCATTCCTATCTCGTACACTTCTGGGCAGTCATGGACAAGAGCTATTGATAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTGCTCCTCTTCTTCGTGA
59.04
CTCCGGGTGTGGTTTATGCA
60.32
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTGCTCCTCTTCTTCGTGA
59.04
TCCGGGTGTGGTTTATGCAC
60.61
145
PCR template sequence:
GAAAAAGTTGCTCCTCTTCTTCGTGAAATTTTTGTAGACTTTGCCCCATTCCTATCTCGTACACTTCTGGGCAGTCATGGACAAGAGCTATTGATAGAAGATCTTGACAGAGCAAGTCTGTACTCAAGTTGTGCATAAACCACACCCGGAGCCAGACTCCACAGTCAAAATCCAGAATCCAATGATTCTTAAGGTGGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
29
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-155-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-135a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-216a-5p(1), mmu-miR-217-5p(1), mmu-miR-7a-5p(1), mmu-miR-326-3p(1), mmu-miR-495-3p(1), mmu-miR-149-5p(1), mmu-miR-153-3p(1), mmu-miR-125a-5p(1), mmu-miR-218-5p(1), mmu-miR-382-5p(1), mmu-miR-107-3p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-484(1), mmu-miR-452-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTATTGATAGAAGATCTTGACAGAGC
siRNA sets
CAAGATCTTCTATCAATAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNBEA_3331_ORF_1
1.0626
0.127560767
0.999999999
3288
ORF sequence:
ATGATTCTTAAGGTGGTGGCAACTTTGTTAAAGAACTCAACACCAAGTGCAGAATTGATGGAAGTCCGTCGGCTGTTTTTATCCGACATGATTAAGCTTTTCAGTAACAGCCGTGAAAATAGAAGATGCTTACTGCAATGTTCAGTGTGGCAGGACTGGATGTTTTCTCTTGGCTATATCAATCCAAAAAGTTCTGAGGAACAGAAGATTACTGAGATGGTCTACAACATTTTCCGGATTCTTTTGTATCATGCAATAAAATATGAATGGGGAGGCTGGAGAGTCTGGGTGGACACACTCTCAATAGCCCATTCCAAGGTTACTTACGAAGCACACAAAGAGTACCTGGCCAAAATGTATGAGGAGTACCAGCGACAAGAGGAGGAGAACATTAAGAAAGGAAAGAAAGGAAATGTGAGCACCATCTCTGGTCTCTCATCACAGACAGCAGGAGCAAAAGGAGGAATGGAAATCCGGGAGATAGAAGACCTTTCCCAAAGCCAGAGCCCAGAGAGTGAGACAGACTACCCAGTCAGCACAGATACACGAGACTTGCTCATGTCAACCAAAGTATCAGATGATATTCTTGGAAGTTCAGATAGGCCTGGCAGTGGAGTGCACGTAGAAGTGCATGATCTTCTAGTTGACATAAAAGCAGAGAAAGTGGAAGCCACAGAAGTAAAGCTTGATGATATGGACTTGTCACCAGAGACATTGGTGGGTGGAGAGAATGGTGCCCTTGTGGAAGTGGAGTCCTTGTTGGATAATGTGTATAGTGCTGCTGTAGAGAAACTCCAGAACAATGTGCATGGAAGTGTGGGTATCATTAAAAAAAACGAAGAGAAAGACAACGGCCCGTTGATCACGCTAGCAGATGAGAAGGAGGAGCTTCCAAACAGTAGCACACCCTTCCTCTTTGATAAAATACCCAGACAGGAAGAGAAATTACTTCCAGAACTTTCTAGCAATCACATCATCCCAAATATTCAGGATACCCAAGTACATCTTGGTGTCAGTGATGATCTTGGGTTGCTTGCTCACATGACTGCGAGTGTAGAGTTAACGTGCACATCAAGCATAATGGAAGAGAAAGACTTCAGAATTCATACGACGTCAGATGGAGTGAGCAGTGTCTCTGAACGAGAGTTAGCATCGTCAACTAAGGGGTTAGACTATGCGGAAATGACTGCCACAACTTTGGAAACAGAGTCTTCCAATAGCAAAGCTGTACCAAATGTTGATGCAGGAAGTATAATTTCAGACACTGAGCGATCTGATGATGGCAAAGAATCGGGAAAGGAAATCCGAAAAATCCAGACCACTGCTACAACACAAGCTGTCCAGGGCCGGTCTTCCACCCAGCAAGACCGAGATCTCAGAGTCGATTTAGGATTCCGAGGGATGCCAATGACTGAGGAACAGCGGCGCCAGTTCAGCCCTGGCCCCCGGACCACCATGTTTCGGATCCCTGAGTTTAAGTGGTCTCCGATGCACCAGAGACTGCTCACTGATCTGTTGTTTGCATTAGAGACAGATGTGCATGTGTGGAGAAGCCATTCTACAAAGTCTGTAATGGATTTTGTCAACAGCAATGAAAACATTATATTTGTACATAACACAATTCACCTCATTTCCCAAATGGTAGACAACATCATCATTGCCTGTGGAGGAATTTTACCTTTGCTCTCAGCAGCTACATCGCCAACTGGTTCTAAGACTGAATTGGAAAACATTGAAGTGACACAAGGCATGTCAGCAGAGACAGCAGTGACGTTTCTCAGCCGACTCATGGCAATGGTTGATGTCCTTGTGTTTGCCAGCTCTCTAAATTTTAGTGAGATTGAAGCTGAAAAAAACATGTCCTCTGGAGGGCTAATGAGACAGTGCCTGCGGCTAGTTTGTTGTGTAGCTGTGAGAAACTGTTTAGAATGCCGACAGAGACAGAGAGACAGGGGAAGCAAATCTTCCCACGGAAGCAGCAAACCTCAGGAAGCTCCCCACAGTGTGACTGCCGCATCCGCATCCAAGACTCCTTTAGAAAACGTTCCAGGTAACCTTTCTCCCATCAAGGATCCCGATAGGCTTCTTCAGGATGTTGATATCAATCGCCTTCGTGCTGTTGTCTTTCGAGATGTGGATGATAGCAAGCAGGCACAATTCTTAGCCCTGGCTGTTGTTTACTTTATTTCTGTTCTGATGGTATCGAAGTATCGGGACATATTAGAACCCCAGAGAGAGACTGCAAGAACTGGAAGCCAACCAGGTAGAAATATCAGACAAGAAATAAATTCACCAACTAGTACAGTTGTGGTCATACCATCTATCCCTCATCCAAGTTTGAACCATGGACTCCTTGCCAAGCTGATGCCTGAGCAGAGTTTTGCCCACTCATTTTATAAAGAAACACCTGCTACATTTCCAGACACTGTAAAGGAGAAGGAAACACCAACCCCTGGTGAAGATATTCAGCTAGAAAGTTCAGTTCCTCACACAGATTCCGGAATGGGAGAGGAGCAAGTAGCTAGCATCCTGGATGGGGCAGAGCTGGAGCCTGCTGCAGGTCCTGATGCAATGAGTGAACTTTTATCCACTTTGTCATCAGAAGTAAAGAAATCACAGGAGAGCTTAACTGAACATCCCAGTGAAATGCTGAAGCCTGCACCGTCCATATCTAGCATTAGTCAAACCAAAGGTATTAATGTGAAGGAGATACTAAAAAGTCTTGTGGCTGCCCCAGTTGAGATTGCTGAGTGTGGCCCTGAGCCTATTCCATACCCAGATCCGGCACTGAAGAGAGAAGCACACGCTATTCTTCCTATGCAGTTCCATTCCTTTGACAGGAGTGTGGTGGTACCTGTAAAGAAGCCGCCTCCAGGTAGTCTAGCTGTCACCACGGTGGGAGCCACTGCTGCAGGAAGTGGGCTGCCAACAGGCAGCACCTCAAGTATATTTGCTGCCCCTGGAGCTACACCAAAAAGTATGATTAACACGACAGGTGCTGTGGATTCAGGGTCCTCCTCCTCTTCCTCCTCTTCTAGTTTTGTTAATGGTGCTACCAGCAAAAATCTTCCAGCTGTACAAACCGTAGCCCCAATGCCAGAAGATTCAGCTGAGAACATGAGCATCACTGCAAAACTTGAAAGAGCTTTAGAAAAAGTTGCTCCTCTTCTTCGTGAAATTTTTGTAGACTTTGCCCCATTCCTATCTCGTACACTTCTGGGCAGTCATGGACAAGAGCTATTGATAGAAGATCTTGACAGAGCAAGTCTGTACTCAAGTTGTGCATAA
Peptide sequence:
MILKVVATLLKNSTPSAELMEVRRLFLSDMIKLFSNSRENRRCLLQCSVWQDWMFSLGYINPKSSEEQKITEMVYNIFRILLYHAIKYEWGGWRVWVDTLSIAHSKVTYEAHKEYLAKMYEEYQRQEEENIKKGKKGNVSTISGLSSQTAGAKGGMEIREIEDLSQSQSPESETDYPVSTDTRDLLMSTKVSDDILGSSDRPGSGVHVEVHDLLVDIKAEKVEATEVKLDDMDLSPETLVGGENGALVEVESLLDNVYSAAVEKLQNNVHGSVGIIKKNEEKDNGPLITLADEKEELPNSSTPFLFDKIPRQEEKLLPELSSNHIIPNIQDTQVHLGVSDDLGLLAHMTASVELTCTSSIMEEKDFRIHTTSDGVSSVSERELASSTKGLDYAEMTATTLETESSNSKAVPNVDAGSIISDTERSDDGKESGKEIRKIQTTATTQAVQGRSSTQQDRDLRVDLGFRGMPMTEEQRRQFSPGPRTTMFRIPEFKWSPMHQRLLTDLLFALETDVHVWRSHSTKSVMDFVNSNENIIFVHNTIHLISQMVDNIIIACGGILPLLSAATSPTGSKTELENIEVTQGMSAETAVTFLSRLMAMVDVLVFASSLNFSEIEAEKNMSSGGLMRQCLRLVCCVAVRNCLECRQRQRDRGSKSSHGSSKPQEAPHSVTAASASKTPLENVPGNLSPIKDPDRLLQDVDINRLRAVVFRDVDDSKQAQFLALAVVYFISVLMVSKYRDILEPQRETARTGSQPGRNIRQEINSPTSTVVVIPSIPHPSLNHGLLAKLMPEQSFAHSFYKETPATFPDTVKEKETPTPGEDIQLESSVPHTDSGMGEEQVASILDGAELEPAAGPDAMSELLSTLSSEVKKSQESLTEHPSEMLKPAPSISSISQTKGINVKEILKSLVAAPVEIAECGPEPIPYPDPALKREAHAILPMQFHSFDRSVVVPVKKPPPGSLAVTTVGATAAGSGLPTGSTSSIFAAPGATPKSMINTTGAVDSGSSSSSSSSSFVNGATSKNLPAVQTVAPMPEDSAENMSITAKLERALEKVAPLLREIFVDFAPFLSRTLLGSHGQELLIEDLDRASLYSSCA
IRESfinder result
IRESfinder score
0.578538279
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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