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mmu_circBrap_974
Basic information of circular RNA
PanCircBase ID:
mmu_circBrap_974
mm39_Chr. Position ID:
chr5|121801358|121817989|+
Gene name:
Brap
Transcript:
ENSMUST00000031414.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,1803,8789,11934,15468,15915,16521
Genomic length:
16631
Exon/intron sizes in nt:
1,96,19,01,14,14,97,61,00,000
Flanking exon/introns:
chr5:121800224-121801358|chr5:121817989-121820842
Splice length:
974
Other database IDs:
circBase: hsa_circ_0097343, circAtlas: hsa-BRAP_0013, CIRCpedia: HSA_CIRCpedia_6711
Human Ortholog IDs:
Mature spliced Sequence:
ATGAAGTGAGAGACACAGTGGAAGAAAAGAAGCCTTCAGCAGCCCCTGTCTCTGCACAGAGAAGTAGAGAACAGAGTGAGTCTGTGAACACAGCCCCAGAGTCTCCATCCAAACAGCTCCCAGACCAGATTTCCTTCTTCAGTGGCAACCCTTCTGTTGAAATAGTCCACGGCATTATGCACCTGTACAAGACAAATAAGATGACCTCCCTAAAAGAAGACGTTCGGCGCAGTGCCATGCTGTGTGTCCTCACCGTCCCTGCCACCATGACCAGTCATGACCTTATGAAGTTTGTTGCCCCATTCAATGATGTAATTGAACAAATGAAAATCATCAGGGACTCTACTCCGAATCAGTACATGGTACTGATCAAGTTCAGTGCGCAGGCTGATGCAGACAGTTTCTACATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGCTGAAATCTGAAGATGGCGCCAGCCTCCCCGTGATGGACCTGACGGAGCTGCCCAAGTGCACTGTGTGTCTGGAGCGGATGGACGAGTCTGTGAATGGCATCCTCACCACCCTCTGCAACCACAGCTTCCATAGTCAGTGTCTGCAGCGGTGGGATGACACCACGTGTCCTGTGTGCCGATACTGTCAAACGCCAGAGCCAGTGGAAGAAAACAAATGTTTTGAGTGTGGTGTCCAGGAAAACCTCTGGATTTGTTTAATATGCGGCCACATAGGCTGTGGGCGGTACGTGAGTCGGCATGCTTACAAGCACTTTGAGGAGACCCAGCACACATACGCCATGCAGCTCACCAACCATCGAGTCTGGGACTATGCTGGAGATAATTATGTCCATCGACTGGTTGCAAGCAAGACGGATGGAAAGATCGTTCAGTACGAGTGTGAGGGCGACACCTGCCAGGAAGAGAAGATAGATGCCTTACAGTTAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCAGTACGAGTGTGAGGGC
59.4
GGGCTGTGTTCACAGACTCA
59.89
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACTGGTTGCAAGCAAGACG
60.04
GAGACAGGGGCTGCTGAAG
60.08
147
PCR template sequence:
CCATCGACTGGTTGCAAGCAAGACGGATGGAAAGATCGTTCAGTACGAGTGTGAGGGCGACACCTGCCAGGAAGAGAAGATAGATGCCTTACAGTTAGAGATGAAGTGAGAGACACAGTGGAAGAAAAGAAGCCTTCAGCAGCCCCTGTCTCTGCACAGAGAAGTAGAGAACAGAGTGAGTCTGTGAACACAGCCCCAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-148a-3p(1), mmu-miR-320-3p(1), mmu-miR-149-5p(1), mmu-miR-433-5p(1), mmu-miR-431-5p(1), mmu-miR-363-3p(1), mmu-miR-382-3p(1), mmu-miR-183-5p(1), mmu-miR-1187(1), mmu-miR-5101(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTACAGTTAGAGATGAAGTGAGAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRAP_974_ORF_1
1.0113
0.365449438
0.980348408
807
ORF sequence:
ATGCACCTGTACAAGACAAATAAGATGACCTCCCTAAAAGAAGACGTTCGGCGCAGTGCCATGCTGTGTGTCCTCACCGTCCCTGCCACCATGACCAGTCATGACCTTATGAAGTTTGTTGCCCCATTCAATGATGTAATTGAACAAATGAAAATCATCAGGGACTCTACTCCGAATCAGTACATGGTACTGATCAAGTTCAGTGCGCAGGCTGATGCAGACAGTTTCTACATGGCGTGCAATGGCCGCCAGTTCAACTCAATCGAAGATGACGTCTGCCAGCTGGTCTATGTGGAAAGGGCTGAAGTGCTGAAATCTGAAGATGGCGCCAGCCTCCCCGTGATGGACCTGACGGAGCTGCCCAAGTGCACTGTGTGTCTGGAGCGGATGGACGAGTCTGTGAATGGCATCCTCACCACCCTCTGCAACCACAGCTTCCATAGTCAGTGTCTGCAGCGGTGGGATGACACCACGTGTCCTGTGTGCCGATACTGTCAAACGCCAGAGCCAGTGGAAGAAAACAAATGTTTTGAGTGTGGTGTCCAGGAAAACCTCTGGATTTGTTTAATATGCGGCCACATAGGCTGTGGGCGGTACGTGAGTCGGCATGCTTACAAGCACTTTGAGGAGACCCAGCACACATACGCCATGCAGCTCACCAACCATCGAGTCTGGGACTATGCTGGAGATAATTATGTCCATCGACTGGTTGCAAGCAAGACGGATGGAAAGATCGTTCAGTACGAGTGTGAGGGCGACACCTGCCAGGAAGAGAAGATAGATGCCTTACAGTTAGAGATGAAGTGA
Peptide sequence:
MHLYKTNKMTSLKEDVRRSAMLCVLTVPATMTSHDLMKFVAPFNDVIEQMKIIRDSTPNQYMVLIKFSAQADADSFYMACNGRQFNSIEDDVCQLVYVERAEVLKSEDGASLPVMDLTELPKCTVCLERMDESVNGILTTLCNHSFHSQCLQRWDDTTCPVCRYCQTPEPVEENKCFECGVQENLWICLICGHIGCGRYVSRHAYKHFEETQHTYAMQLTNHRVWDYAGDNYVHRLVASKTDGKIVQYECEGDTCQEEKIDALQLEMK
IRESfinder result
IRESfinder score
0.31558893
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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