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mmu_circ4932438A13Rik_1170
Basic information of circular RNA
PanCircBase ID:
mmu_circ4932438A13Rik_1170
mm39_Chr. Position ID:
chr3|36974003|36992723|+
Gene name:
4932438A13Rik
Transcript:
ENSMUST00000057272.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
18,19,20,21,22,23,24
Exon/intron offsets:
0,325,1364,8580,11143,17134,18591
Genomic length:
18720
Exon/intron sizes in nt:
17,91,07,20,92,28,13,80,00,000
Flanking exon/introns:
chr3:36972698-36974003|chr3:36992723-36994901
Splice length:
1170
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGAGAAGATGTTGATCTTCATTTATTTCTACCAGATTGCCACCCTAGTAAATATTCATTATTTATGCTGGTAAAGAATTGTCACCCAAATAAGATGGTTCCTGAAACTGGTATTCCTGCCGAGTGTCAGAGTGGCCAGAAAACAGTTAAACCAAAGTGGCGCAACGTTACTCAGGAAAAGGCTGGTTGGGTTGAATGCTGGACTGTCCCAAGTGTCATGCTCACCATTGATTATACCTGGCATCCAATTTATCCACAAAAAGCAGATGAACAGCTAAAACAGTCATTGTCAGAAATGGAAGAAACAATGCTATCTGTATTAAGGCCAGCCCAGAAGACATCAGAGAGAGTTGTTTCTTCTCCATCTATGTCACCACGCCCTCCTGTTGATCCCTCAGAGCTTCCACCTGACAAACTTCATGTAGAGATGGAACTCTCCCCAGACTCTCAAATAACTCTCTATGGACCTCTGCTAAATGCCTTCTTATGTATCAAGGAAAACTACTTTGGAGAAGATGACATGTACATGGACTTTGAAGAGGTAATTTCAAGCCCTGTCCTGTCACTGTCAACATCCTCCAGTTCTGGGTGGACCGCTGTTGGAATGGACAATGACAAAAGGGAAAATGAAAGTTCAGCCAAGTCAATCCATCCACTTGCCTTGCGGCCCTGGGATATCACTGTACTTGTTAATTTGTACAAGGTTCATGGGCGCCTTCCTGTGCACGGAACCACCGATGGTCCTGAGTGCCCAACAGCATTTTTGGAGAGACTATGTTTTGAAATGAAAAAGGGATTCAGAGAGACCATGTTGCAACTCGTCTTGTCACCCCTGAATGTGTTTGTCAGTGATAATTATCAGCAGCGACCCCCTGTGGATGAAGTACTCAGGGAAGGTCACATCAATTTGTCAGGTCTCCAGTTGAGAGCACATGCCATGTTCTCAGCTGAAGGTCTTCCCTTAGGAAGTGACTCCTTAGAATATGCATGGCTGATCGATGTGCAGGCTGGAAGCCTTACAGCTAAAGTCACAGCACCACAGCTGGCATGTCTCTTGGAATGGGGGCAGACATTTGTTTTCCATGTGGTATGTCGGGAGTATGAACTGGAAAGACCAAAGTCAGTTATAGTATGCCAACATGGAATTGATCGCCGGTTCTGTGAATCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCATGTGGTATGTCGGGAGT
59.17
TACTAGGGTGGCAATCTGGT
57.74
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATGTGGTATGTCGGGAG
58.88
ACTAGGGTGGCAATCTGGTAG
58.88
140
PCR template sequence:
ATTTGTTTTCCATGTGGTATGTCGGGAGTATGAACTGGAAAGACCAAAGTCAGTTATAGTATGCCAACATGGAATTGATCGCCGGTTCTGTGAATCCAAGGGAGAAGATGTTGATCTTCATTTATTTCTACCAGATTGCCACCCTAGTAAATATTCATTATTTATGCTGGTAAAGAATTGTCACCCAAATAAGATGGTTC
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-9-5p(1), mmu-miR-93-5p(1), mmu-miR-181a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-181b-5p(1), mmu-miR-125a-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTGAATCCAAGGGAGAAGATGTTG
siRNA sets
CAACATCTTCTCCCTTGGA,TTCTCCCTTGGATTCACAG,ATCTTCTCCCTTGGATTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC4932438A13RIK_1170_ORF_1
0.8644
0.046665612
0.999997581
2277
ORF sequence:
ATGCTGGTAAAGAATTGTCACCCAAATAAGATGGTTCCTGAAACTGGTATTCCTGCCGAGTGTCAGAGTGGCCAGAAAACAGTTAAACCAAAGTGGCGCAACGTTACTCAGGAAAAGGCTGGTTGGGTTGAATGCTGGACTGTCCCAAGTGTCATGCTCACCATTGATTATACCTGGCATCCAATTTATCCACAAAAAGCAGATGAACAGCTAAAACAGTCATTGTCAGAAATGGAAGAAACAATGCTATCTGTATTAAGGCCAGCCCAGAAGACATCAGAGAGAGTTGTTTCTTCTCCATCTATGTCACCACGCCCTCCTGTTGATCCCTCAGAGCTTCCACCTGACAAACTTCATGTAGAGATGGAACTCTCCCCAGACTCTCAAATAACTCTCTATGGACCTCTGCTAAATGCCTTCTTATGTATCAAGGAAAACTACTTTGGAGAAGATGACATGTACATGGACTTTGAAGAGGTAATTTCAAGCCCTGTCCTGTCACTGTCAACATCCTCCAGTTCTGGGTGGACCGCTGTTGGAATGGACAATGACAAAAGGGAAAATGAAAGTTCAGCCAAGTCAATCCATCCACTTGCCTTGCGGCCCTGGGATATCACTGTACTTGTTAATTTGTACAAGGTTCATGGGCGCCTTCCTGTGCACGGAACCACCGATGGTCCTGAGTGCCCAACAGCATTTTTGGAGAGACTATGTTTTGAAATGAAAAAGGGATTCAGAGAGACCATGTTGCAACTCGTCTTGTCACCCCTGAATGTGTTTGTCAGTGATAATTATCAGCAGCGACCCCCTGTGGATGAAGTACTCAGGGAAGGTCACATCAATTTGTCAGGTCTCCAGTTGAGAGCACATGCCATGTTCTCAGCTGAAGGTCTTCCCTTAGGAAGTGACTCCTTAGAATATGCATGGCTGATCGATGTGCAGGCTGGAAGCCTTACAGCTAAAGTCACAGCACCACAGCTGGCATGTCTCTTGGAATGGGGGCAGACATTTGTTTTCCATGTGGTATGTCGGGAGTATGAACTGGAAAGACCAAAGTCAGTTATAGTATGCCAACATGGAATTGATCGCCGGTTCTGTGAATCCAAGGGAGAAGATGTTGATCTTCATTTATTTCTACCAGATTGCCACCCTAGTAAATATTCATTATTTATGCTGGTAAAGAATTGTCACCCAAATAAGATGGTTCCTGAAACTGGTATTCCTGCCGAGTGTCAGAGTGGCCAGAAAACAGTTAAACCAAAGTGGCGCAACGTTACTCAGGAAAAGGCTGGTTGGGTTGAATGCTGGACTGTCCCAAGTGTCATGCTCACCATTGATTATACCTGGCATCCAATTTATCCACAAAAAGCAGATGAACAGCTAAAACAGTCATTGTCAGAAATGGAAGAAACAATGCTATCTGTATTAAGGCCAGCCCAGAAGACATCAGAGAGAGTTGTTTCTTCTCCATCTATGTCACCACGCCCTCCTGTTGATCCCTCAGAGCTTCCACCTGACAAACTTCATGTAGAGATGGAACTCTCCCCAGACTCTCAAATAACTCTCTATGGACCTCTGCTAAATGCCTTCTTATGTATCAAGGAAAACTACTTTGGAGAAGATGACATGTACATGGACTTTGAAGAGGTAATTTCAAGCCCTGTCCTGTCACTGTCAACATCCTCCAGTTCTGGGTGGACCGCTGTTGGAATGGACAATGACAAAAGGGAAAATGAAAGTTCAGCCAAGTCAATCCATCCACTTGCCTTGCGGCCCTGGGATATCACTGTACTTGTTAATTTGTACAAGGTTCATGGGCGCCTTCCTGTGCACGGAACCACCGATGGTCCTGAGTGCCCAACAGCATTTTTGGAGAGACTATGTTTTGAAATGAAAAAGGGATTCAGAGAGACCATGTTGCAACTCGTCTTGTCACCCCTGAATGTGTTTGTCAGTGATAATTATCAGCAGCGACCCCCTGTGGATGAAGTACTCAGGGAAGGTCACATCAATTTGTCAGGTCTCCAGTTGAGAGCACATGCCATGTTCTCAGCTGAAGGTCTTCCCTTAGGAAGTGACTCCTTAGAATATGCATGGCTGATCGATGTGCAGGCTGGAAGCCTTACAGCTAAAGTCACAGCACCACAGCTGGCATGTCTCTTGGAATGGGGGCAGACATTTGTTTTCCATGTGGTATGTCGGGAGTATGAACTGGAAAGACCAAAGTCAGTTATAGTATGCCAACATGGAATTGATCGCCGGTTCTGTGAATCCAAG
Peptide sequence:
MLVKNCHPNKMVPETGIPAECQSGQKTVKPKWRNVTQEKAGWVECWTVPSVMLTIDYTWHPIYPQKADEQLKQSLSEMEETMLSVLRPAQKTSERVVSSPSMSPRPPVDPSELPPDKLHVEMELSPDSQITLYGPLLNAFLCIKENYFGEDDMYMDFEEVISSPVLSLSTSSSSGWTAVGMDNDKRENESSAKSIHPLALRPWDITVLVNLYKVHGRLPVHGTTDGPECPTAFLERLCFEMKKGFRETMLQLVLSPLNVFVSDNYQQRPPVDEVLREGHINLSGLQLRAHAMFSAEGLPLGSDSLEYAWLIDVQAGSLTAKVTAPQLACLLEWGQTFVFHVVCREYELERPKSVIVCQHGIDRRFCESKGEDVDLHLFLPDCHPSKYSLFMLVKNCHPNKMVPETGIPAECQSGQKTVKPKWRNVTQEKAGWVECWTVPSVMLTIDYTWHPIYPQKADEQLKQSLSEMEETMLSVLRPAQKTSERVVSSPSMSPRPPVDPSELPPDKLHVEMELSPDSQITLYGPLLNAFLCIKENYFGEDDMYMDFEEVISSPVLSLSTSSSSGWTAVGMDNDKRENESSAKSIHPLALRPWDITVLVNLYKVHGRLPVHGTTDGPECPTAFLERLCFEMKKGFRETMLQLVLSPLNVFVSDNYQQRPPVDEVLREGHINLSGLQLRAHAMFSAEGLPLGSDSLEYAWLIDVQAGSLTAKVTAPQLACLLEWGQTFVFHVVCREYELERPKSVIVCQHGIDRRFCESK
IRESfinder result
IRESfinder score
0.59169195
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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