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mmu_circBrip1_2296
Basic information of circular RNA
PanCircBase ID:
mmu_circBrip1_2296
mm39_Chr. Position ID:
chr11|86001168|86089820|-
Gene name:
Brip1
Transcript:
ENSMUST00000044423.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,24916,28420,28671,32914,35719,38015,42245,47245,76622,79389,82472,87526,88529
Genomic length:
88652
Exon/intron sizes in nt:
1,60,16,21,41,16,61,55,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:85999714-86001168|chr11:86089820-86091934
Splice length:
2296
Other database IDs:
CIRCpedia: HSA_CIRCpedia_363535
Human Ortholog IDs:
Mature spliced Sequence:
TGAAGCACCTAAAGTAGAGAAGAAGGCAGAATGTCCTCAGTGTTGTCTGACTACACCATCGGTGGGGTGAAGATCCACTTTCCCTGTAGAGCGTATCCAGCACAGCTTGCGATGATGAATTCTATTGTCAGAGGACTAAACAGCAGCCAACACTGTTTGCTGGAGAGTCCCACAGGAAGTGGAAAAAGTTTAGCCTTACTTTGTTCTGCATTAGCATGGCAGCAATCTCTTAGTGAGAAGCCAGTGGATGAGGGCCTGAATAAAAAGCCTGAGGCACCACCTTCATGTTCTTGTGCATGCCATTCAAAGAATTTTACCTACAGCGACACAAACCTGGACACTTCACCTCATTTCAATAGTCCAAGCAAACCATCTTCTGGAAGAAATGGAGTCTCAACTCCCTGTCAAGACTCTCCTGAAAAAAATACTCTGGCTGCAAAGTTATCTGCCAAGAAACAGGCATCTATACACAGAGACGAAGATGATGATTTTCAGGTAGAGAAGAAAAGAATCCGACCCTTAGAAACTACACAGCAGATAAGAAAACGTCATTGTTTGGAAAAGGACGTCCACCATGTAGATGCACGACTAGCTTCGGAAAAGAGAGTAAAGCCTGAGTCTCCGATAGGAAAGTCTTTCTCCGACAGGAAAGACTCTTTTCAAAATGTGGATGGCCTTTGTTCCAGGTGCTGCTGTTCTGCTAAACAAGGAAACAACCAAGAGCCTGCAAATACTGTTAAGAAAGATCACGGGGGACAATGCAAGAGACCTAAAATTTATTTTGGGACGCGGACACACAAGCAGATTGCTCAGATTACCAGGGAGCTCCGTAAGACAGCTTACTCAGGGGTCCCGATGACTATTCTTTCCAGCAGGGACCACAGCTGTGTCCATCCTGAAGTGGTGGGGAATTTCAACAGAAAGGAGAAGTGCATGGAGCTGCTGGATGGCAAGCACGGGAAGTCCTGCTATTTCTATCATGGTGTTCATAAAATTAGTAATCAGCAGACACTGCAGCACCTTCAGGGCATGTCCAGAGCCTGGGACATAGAAGAACTAGTCAGCCTCGGGAGGAAACTGAAAGCTTGTCCCTACTATACAGCTCGAGAACTGATAGAGGATGCTGACATAGTGTTTTGTCCCTACAACTACCTTTTAGACTCACAAATAAGGGAAACTATGGATATAAAGCTGAAAGGACAAGTTGTCATTTTAGATGAAGCTCACAACATTGAAGACTGTGCTCGGGAATCAGCAAGCTACAGTGTAACCGAAGTTCAGCTTAGGTTTGCTCGGGATGAGCTAGATAGTTTGATCAACGGTAACATAAGGAAGAAAAGCCACGAGCCCCTACGAGATGTGTGCTATAACCTCATCAATTGGTTAGAAACAAATTCTAAGCATCTTGTAGAAAGGGGTTATGAGTCGTCTTGTAAAATATGGAGTGGAAATGAGATGCTCTTAAACTTATACAGGATGGGCATCACCACGGCTACTTTTCCAGTTTTGCAGAGGCATCTCTCAGCTGTTCTTCAAAAAGAAGAGAAAGTCACACCAATCCATGGTAAAGAGGAGGCAATACAAATCCCTATTATCAGTGCATCAACTCAAGTCGTGCTCAAAGGACTCTTTATGGTGCTTGACTATCTCTTTAGAGAAAATAGCAGATTTGCAGATGATTATAAAGTTGCTATTCAACAGACTTACTCCTGGACAAATCAGATTGCTATTTTTGATAAAACTGGAGTCTTGGCTGTACCAAAAAATAAGAAACATTCACGACAGAAAATTGGAGTTAATGCGCTAAACTTTTGGTGTTTAAATCCAGCTGTGGCCTTTTCAGATATTAATGACAAAGTACGGACCATTGTTCTAACATCAGGAACACTCTCACCCCTGAAATCCTTTTCATCTGAGCTTGGTGTCACATTTAGCATCCAACTGGAGGCTAACCATGTCATCAGTAACTCACAGGTTTGGGTTGGTACTGTTGGCTCAGGCCCTAAGGGTCGGAATCTCTGCGCTACCTTTCAGCATACTGAAACATTTGAGTTCCAGGATGAAGTGGGAATGCTTCTGTTATCTGTGTGCCAGACTGTGAGCCAAGGAATTCTGTGCTTTTTGCCATCTTACAAGCTATTAGAGAAATTAAGAGAACGTTGGATTTTCACTGGCCTATGGCATAGTTTGGAGTCAGTGAAGACAGTCATTGCAGAACCCCAAGGAGGAGAAAAAACTGATTTTGATGAATTGCTGCAAGTGTACTATGACGCCATCAAGTTCAAAGGAGAAAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGCAGAACCCCAAGGAGG
59.96
GATCTTCACCCCACCGATGG
60.18
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGCAGAACCCCAAGGAGG
59.96
GGATCTTCACCCCACCGATG
60.18
164
PCR template sequence:
GTGAAGACAGTCATTGCAGAACCCCAAGGAGGAGAAAAAACTGATTTTGATGAATTGCTGCAAGTGTACTATGACGCCATCAAGTTCAAAGGAGAAAAGGTGAAGCACCTAAAGTAGAGAAGAAGGCAGAATGTCCTCAGTGTTGTCTGACTACACCATCGGTGGGGTGAAGATCCACTTTCCCTGTAGAGCGTATCCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-135a-5p(1), mmu-miR-34a-5p(1), mmu-miR-322-5p(1), mmu-miR-18a-5p(1), mmu-miR-125b-5p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-690(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGGAGAAAAGGTGAAGCACCTAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRIP1_2296_ORF_1
0.6845
0.060694602
0.999996778
2283
ORF sequence:
ATGTCCTCAGTGTTGTCTGACTACACCATCGGTGGGGTGAAGATCCACTTTCCCTGTAGAGCGTATCCAGCACAGCTTGCGATGATGAATTCTATTGTCAGAGGACTAAACAGCAGCCAACACTGTTTGCTGGAGAGTCCCACAGGAAGTGGAAAAAGTTTAGCCTTACTTTGTTCTGCATTAGCATGGCAGCAATCTCTTAGTGAGAAGCCAGTGGATGAGGGCCTGAATAAAAAGCCTGAGGCACCACCTTCATGTTCTTGTGCATGCCATTCAAAGAATTTTACCTACAGCGACACAAACCTGGACACTTCACCTCATTTCAATAGTCCAAGCAAACCATCTTCTGGAAGAAATGGAGTCTCAACTCCCTGTCAAGACTCTCCTGAAAAAAATACTCTGGCTGCAAAGTTATCTGCCAAGAAACAGGCATCTATACACAGAGACGAAGATGATGATTTTCAGGTAGAGAAGAAAAGAATCCGACCCTTAGAAACTACACAGCAGATAAGAAAACGTCATTGTTTGGAAAAGGACGTCCACCATGTAGATGCACGACTAGCTTCGGAAAAGAGAGTAAAGCCTGAGTCTCCGATAGGAAAGTCTTTCTCCGACAGGAAAGACTCTTTTCAAAATGTGGATGGCCTTTGTTCCAGGTGCTGCTGTTCTGCTAAACAAGGAAACAACCAAGAGCCTGCAAATACTGTTAAGAAAGATCACGGGGGACAATGCAAGAGACCTAAAATTTATTTTGGGACGCGGACACACAAGCAGATTGCTCAGATTACCAGGGAGCTCCGTAAGACAGCTTACTCAGGGGTCCCGATGACTATTCTTTCCAGCAGGGACCACAGCTGTGTCCATCCTGAAGTGGTGGGGAATTTCAACAGAAAGGAGAAGTGCATGGAGCTGCTGGATGGCAAGCACGGGAAGTCCTGCTATTTCTATCATGGTGTTCATAAAATTAGTAATCAGCAGACACTGCAGCACCTTCAGGGCATGTCCAGAGCCTGGGACATAGAAGAACTAGTCAGCCTCGGGAGGAAACTGAAAGCTTGTCCCTACTATACAGCTCGAGAACTGATAGAGGATGCTGACATAGTGTTTTGTCCCTACAACTACCTTTTAGACTCACAAATAAGGGAAACTATGGATATAAAGCTGAAAGGACAAGTTGTCATTTTAGATGAAGCTCACAACATTGAAGACTGTGCTCGGGAATCAGCAAGCTACAGTGTAACCGAAGTTCAGCTTAGGTTTGCTCGGGATGAGCTAGATAGTTTGATCAACGGTAACATAAGGAAGAAAAGCCACGAGCCCCTACGAGATGTGTGCTATAACCTCATCAATTGGTTAGAAACAAATTCTAAGCATCTTGTAGAAAGGGGTTATGAGTCGTCTTGTAAAATATGGAGTGGAAATGAGATGCTCTTAAACTTATACAGGATGGGCATCACCACGGCTACTTTTCCAGTTTTGCAGAGGCATCTCTCAGCTGTTCTTCAAAAAGAAGAGAAAGTCACACCAATCCATGGTAAAGAGGAGGCAATACAAATCCCTATTATCAGTGCATCAACTCAAGTCGTGCTCAAAGGACTCTTTATGGTGCTTGACTATCTCTTTAGAGAAAATAGCAGATTTGCAGATGATTATAAAGTTGCTATTCAACAGACTTACTCCTGGACAAATCAGATTGCTATTTTTGATAAAACTGGAGTCTTGGCTGTACCAAAAAATAAGAAACATTCACGACAGAAAATTGGAGTTAATGCGCTAAACTTTTGGTGTTTAAATCCAGCTGTGGCCTTTTCAGATATTAATGACAAAGTACGGACCATTGTTCTAACATCAGGAACACTCTCACCCCTGAAATCCTTTTCATCTGAGCTTGGTGTCACATTTAGCATCCAACTGGAGGCTAACCATGTCATCAGTAACTCACAGGTTTGGGTTGGTACTGTTGGCTCAGGCCCTAAGGGTCGGAATCTCTGCGCTACCTTTCAGCATACTGAAACATTTGAGTTCCAGGATGAAGTGGGAATGCTTCTGTTATCTGTGTGCCAGACTGTGAGCCAAGGAATTCTGTGCTTTTTGCCATCTTACAAGCTATTAGAGAAATTAAGAGAACGTTGGATTTTCACTGGCCTATGGCATAGTTTGGAGTCAGTGAAGACAGTCATTGCAGAACCCCAAGGAGGAGAAAAAACTGATTTTGATGAATTGCTGCAAGTGTACTATGACGCCATCAAGTTCAAAGGAGAAAAGGTGAAGCACCTAAAGTAG
Peptide sequence:
MSSVLSDYTIGGVKIHFPCRAYPAQLAMMNSIVRGLNSSQHCLLESPTGSGKSLALLCSALAWQQSLSEKPVDEGLNKKPEAPPSCSCACHSKNFTYSDTNLDTSPHFNSPSKPSSGRNGVSTPCQDSPEKNTLAAKLSAKKQASIHRDEDDDFQVEKKRIRPLETTQQIRKRHCLEKDVHHVDARLASEKRVKPESPIGKSFSDRKDSFQNVDGLCSRCCCSAKQGNNQEPANTVKKDHGGQCKRPKIYFGTRTHKQIAQITRELRKTAYSGVPMTILSSRDHSCVHPEVVGNFNRKEKCMELLDGKHGKSCYFYHGVHKISNQQTLQHLQGMSRAWDIEELVSLGRKLKACPYYTARELIEDADIVFCPYNYLLDSQIRETMDIKLKGQVVILDEAHNIEDCARESASYSVTEVQLRFARDELDSLINGNIRKKSHEPLRDVCYNLINWLETNSKHLVERGYESSCKIWSGNEMLLNLYRMGITTATFPVLQRHLSAVLQKEEKVTPIHGKEEAIQIPIISASTQVVLKGLFMVLDYLFRENSRFADDYKVAIQQTYSWTNQIAIFDKTGVLAVPKNKKHSRQKIGVNALNFWCLNPAVAFSDINDKVRTIVLTSGTLSPLKSFSSELGVTFSIQLEANHVISNSQVWVGTVGSGPKGRNLCATFQHTETFEFQDEVGMLLLSVCQTVSQGILCFLPSYKLLEKLRERWIFTGLWHSLESVKTVIAEPQGGEKTDFDELLQVYYDAIKFKGEKVKHLK
IRESfinder result
IRESfinder score
0.609256769
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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