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mmu_circBlmh_1005
Basic information of circular RNA
PanCircBase ID:
mmu_circBlmh_1005
mm39_Chr. Position ID:
chr11|76840785|76862804|+
Gene name:
Blmh
Transcript:
ENSMUST00000021197.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
3,4,5,6,7,8,9,10,11
Exon/intron offsets:
0,1084,2541,4550,15855,16772,17034,18643,21949
Genomic length:
22019
Exon/intron sizes in nt:
110,142,89,93,156,159,68,118,70
Flanking exon/introns:
chr11:76837265-76840785|chr11:76862804-76877301
Splice length:
1005
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GACGATGCTGGATCTTTTCTTGTTTGAATGTTATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTTTTGGGACAAGGTTGAACGCTGTTATTTCTTCTTGAATGCTTTTGTGGACACAGCTCAGAAAAAGGAGCCTGAAGATGGGAGACTGGTGCAGTATTTGCTTATGAACCCTACAAATGATGGTGGACAGTGGGATATGCTTGTCAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAGATGAGAGAATTCTGTATACGGCTTCGGAACCTGGTACACAGTGGAGCCACCAAAGGGGAGATCTCATCTACACAAGATGCCATGATGGAGGAGATATTCAGAGTGGTGTGCATCTGTTTGGGCAACCCACCAGAGACCTTCACCTGGGAGTACCGAGACAAAGATAAAAATTACCACAAGATTGGCCCCATAACACCCTTGCAGTTTTACAAGGAGCACGTGAAGCCGCTCTTCAATATGGAAGATAAGATTTGTTTTGTGAATGACCCACGGCCCCAGCACAAGTACAATAAATTGTACACAGTAGACTACTTGAGCAATATGGTTGGAGGGAGAAAAACGCTGTATAACAACCAGCCCATTGACTTCTTGAAAAAGATGGTTGCTGCCTCCATCAAAGATGGAGAGGCTGTGTGGTTTGGCTGTGATGTTGGAAAACACTTCAATGGCAAGCTGGGCCTCAGTGACATGAATGTCTATGACCATGAGTTAGTGTTCGGTGTCTCCTTGAAGAACATGAATAAAGCTGAGAGGTTGGCTTTTGGTGAGTCACTCATGACCCACGCCATGACCTTCACTGCTGTCTCAGAGAAGGATAATCAGGAAGGTACTTTTGTGAAATGGAGAGTAGAGAATTCATGGGGTGAAGACCACGGCCACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATGACCTTCACTGCTGT
60.61
TGGAAGTCTCATAACATTCAAACA
56.55
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCATGACCTTCACTGCTGT
60.61
TCATGAATGGAAGTCTCATAACA
55.4
151
PCR template sequence:
GCCATGACCTTCACTGCTGTCTCAGAGAAGGATAATCAGGAAGGTACTTTTGTGAAATGGAGAGTAGAGAATTCATGGGGTGAAGACCACGGCCACAAAGGACGATGCTGGATCTTTTCTTGTTTGAATGTTATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTT
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-miR-181d-5p(2), mmu-miR-137-3p(1), mmu-miR-9-5p(1), mmu-miR-200b-3p(1), mmu-miR-181a-5p(1), mmu-miR-335-5p(1), mmu-miR-25-3p(1), mmu-miR-181b-5p(1), mmu-miR-382-3p(1), mmu-miR-680(1), mmu-miR-452-3p(1), mmu-miR-350-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACGGCCACAAAGGACGATGCTGGAT
siRNA sets
AGCATCGTCCTTTGTGGCC, ATCCAGCATCGTCCTTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBLMH_1005_ORF_1
1.1289
0.200762559
0.999993188
1977
ORF sequence:
ATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTTTTGGGACAAGGTTGAACGCTGTTATTTCTTCTTGAATGCTTTTGTGGACACAGCTCAGAAAAAGGAGCCTGAAGATGGGAGACTGGTGCAGTATTTGCTTATGAACCCTACAAATGATGGTGGACAGTGGGATATGCTTGTCAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAGATGAGAGAATTCTGTATACGGCTTCGGAACCTGGTACACAGTGGAGCCACCAAAGGGGAGATCTCATCTACACAAGATGCCATGATGGAGGAGATATTCAGAGTGGTGTGCATCTGTTTGGGCAACCCACCAGAGACCTTCACCTGGGAGTACCGAGACAAAGATAAAAATTACCACAAGATTGGCCCCATAACACCCTTGCAGTTTTACAAGGAGCACGTGAAGCCGCTCTTCAATATGGAAGATAAGATTTGTTTTGTGAATGACCCACGGCCCCAGCACAAGTACAATAAATTGTACACAGTAGACTACTTGAGCAATATGGTTGGAGGGAGAAAAACGCTGTATAACAACCAGCCCATTGACTTCTTGAAAAAGATGGTTGCTGCCTCCATCAAAGATGGAGAGGCTGTGTGGTTTGGCTGTGATGTTGGAAAACACTTCAATGGCAAGCTGGGCCTCAGTGACATGAATGTCTATGACCATGAGTTAGTGTTCGGTGTCTCCTTGAAGAACATGAATAAAGCTGAGAGGTTGGCTTTTGGTGAGTCACTCATGACCCACGCCATGACCTTCACTGCTGTCTCAGAGAAGGATAATCAGGAAGGTACTTTTGTGAAATGGAGAGTAGAGAATTCATGGGGTGAAGACCACGGCCACAAAGGACGATGCTGGATCTTTTCTTGTTTGAATGTTATGAGACTTCCATTCATGAAAAAATTTAACATTGAAGAATTTGAGTTTAGTCAATCTTACCTGTTTTTTTGGGACAAGGTTGAACGCTGTTATTTCTTCTTGAATGCTTTTGTGGACACAGCTCAGAAAAAGGAGCCTGAAGATGGGAGACTGGTGCAGTATTTGCTTATGAACCCTACAAATGATGGTGGACAGTGGGATATGCTTGTCAATATTGTTGAAAAATACGGTGTTGTTCCTAAGAAATGCTTTCCCGAATCGCATACGACAGAGGCTACCAGAAGAATGAATGATATTCTGAATCACAAGATGAGAGAATTCTGTATACGGCTTCGGAACCTGGTACACAGTGGAGCCACCAAAGGGGAGATCTCATCTACACAAGATGCCATGATGGAGGAGATATTCAGAGTGGTGTGCATCTGTTTGGGCAACCCACCAGAGACCTTCACCTGGGAGTACCGAGACAAAGATAAAAATTACCACAAGATTGGCCCCATAACACCCTTGCAGTTTTACAAGGAGCACGTGAAGCCGCTCTTCAATATGGAAGATAAGATTTGTTTTGTGAATGACCCACGGCCCCAGCACAAGTACAATAAATTGTACACAGTAGACTACTTGAGCAATATGGTTGGAGGGAGAAAAACGCTGTATAACAACCAGCCCATTGACTTCTTGAAAAAGATGGTTGCTGCCTCCATCAAAGATGGAGAGGCTGTGTGGTTTGGCTGTGATGTTGGAAAACACTTCAATGGCAAGCTGGGCCTCAGTGACATGAATGTCTATGACCATGAGTTAGTGTTCGGTGTCTCCTTGAAGAACATGAATAAAGCTGAGAGGTTGGCTTTTGGTGAGTCACTCATGACCCACGCCATGACCTTCACTGCTGTCTCAGAGAAGGATAATCAGGAAGGTACTTTTGTGAAATGGAGAGTAGAGAATTCATGGGGTGAAGACCACGGCCACAAA
Peptide sequence:
MRLPFMKKFNIEEFEFSQSYLFFWDKVERCYFFLNAFVDTAQKKEPEDGRLVQYLLMNPTNDGGQWDMLVNIVEKYGVVPKKCFPESHTTEATRRMNDILNHKMREFCIRLRNLVHSGATKGEISSTQDAMMEEIFRVVCICLGNPPETFTWEYRDKDKNYHKIGPITPLQFYKEHVKPLFNMEDKICFVNDPRPQHKYNKLYTVDYLSNMVGGRKTLYNNQPIDFLKKMVAASIKDGEAVWFGCDVGKHFNGKLGLSDMNVYDHELVFGVSLKNMNKAERLAFGESLMTHAMTFTAVSEKDNQEGTFVKWRVENSWGEDHGHKGRCWIFSCLNVMRLPFMKKFNIEEFEFSQSYLFFWDKVERCYFFLNAFVDTAQKKEPEDGRLVQYLLMNPTNDGGQWDMLVNIVEKYGVVPKKCFPESHTTEATRRMNDILNHKMREFCIRLRNLVHSGATKGEISSTQDAMMEEIFRVVCICLGNPPETFTWEYRDKDKNYHKIGPITPLQFYKEHVKPLFNMEDKICFVNDPRPQHKYNKLYTVDYLSNMVGGRKTLYNNQPIDFLKKMVAASIKDGEAVWFGCDVGKHFNGKLGLSDMNVYDHELVFGVSLKNMNKAERLAFGESLMTHAMTFTAVSEKDNQEGTFVKWRVENSWGEDHGHK
IRESfinder result
IRESfinder score
0.493121077
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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