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mmu_circRelch_1825
Basic information of circular RNA
PanCircBase ID:
mmu_circRelch_1825
mm39_Chr. Position ID:
chr1|105643818|105678768|+
Gene name:
Relch
Transcript:
ENSMUST00000185692.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
17
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20
Exon/intron offsets:
0,684,2681,3358,5174,9555,10249,11846,15107,18424,19829,24341,25203,27117,29975,34228,34879
Genomic length:
34950
Exon/intron sizes in nt:
119,72,141,165,148,157,124,49,80,107,100,83,64,139,117,89,71
Flanking exon/introns:
chr1:105641664-105643818|chr1:105678768-105681227
Splice length:
1825
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCATCTAAACCATTATTGAATTATATCATCTTTTGATATGGGAATATGAGAACAGATATACTTTTCCAGTGAAAGAAAGATTTATATTCTATGAAGAAGACATATGGGAACAAAACCCAATTAATCACAAATATCCAGAAAGACGACTGCTCGTGGCAGAGTCCTGTGGAGCATTGGCACCTTACCTTCCTAAAGAAATCCGTAGTTCCCTGGTTCTTTCAATGTTGCAACAGATGTTAATGGAAGATAAGGCTGATTTGGTAAGAGAAGCTGTGATTAAAAGCCTGGGTATCATTATGGGCTACATTGATGATCCTGACAAATATCAACAGGGCTTTGAATTGTTGCTCTCTGCCCTGGGTGATCCCTCAGAAAGAGTTGTTAGTGCAACACACCAAGTATTTTTACCAGCCTATGCTGCCTGGACAACTGAACTTGGAAACTTACAGTCTCATCTTATACCTACACTACTGAACAAGATTGAAAAGCTTCTCAGGGAAGGAGAGCACGGGCTGGACGAACACAAGCTCCACATGTATCTTTCTGCCTTGCAGTCCTTGATCCCATCTCTCTTTGCATTAGTGCTACAGAACGCACCTTTCTCCAGCAAAGCCAAGCTGCATGGTGAAGTACCACATATTGAAGTGACTAGGTTCCCTCGGCCTATGTCACCTCTGCAAGATGTGTCTACTATTATTGGAAGTCGTGAGCAATTGGCAGTGCTACTACAACTTTATGATTACCAACTGGAACATGAAGGCACAACAGGCTGGGAGAGTTTACTCTGGGTTGTCAATCAATTGTTGCCACAGCTTATAGAAATAGTGGGCAAAATTAATGTAACCTCAACTGCCTGTGTCCATGAATTCTCCAGATTTTTCTGGCGTCTTTGCCGGACATTTGGCAAAATTTTTACAAACACTAAGGTAAAACCCCAGTTCCAAGAGATTTTAAGACTCTCTGAAGAAAATATTGATTCCTCAGCAGGAAATGGGGTCCTCACTAAAGCTACTGTCCCCATTTATGCAACAGGAGTCCTCACGTGTTACATTCAGGAAGAGGACCGAAAGCTGTTAGTTGGCTTCTTGGAAGATGTGATGACACTGCTTTCACTGTCTCATGCTCCTCTTGACAGCCTGAAGGCTTCTTTTGTGGAACTTGGTGCAAACCCGGCCTATCATGAGCTGCTGCTAACTGTTCTGTGGTATGGTGTTGTTCATACTTCTGCACTTGTCAGGTGTACTGCTGCTAGGATGTTTGAGCTGTTGGTGAAGGGGGTGAATGAGACTCTGGTAGCTCAGAGGGTTGTTCCTGCTCTCATTACTCTCTCCAGTGACCCTGAAATCTCTGTCAGGATTGCTACAATCCCAGCATTTGGCACTATTATGGAAACAGTTATTCAGAGAGAGTTGCTAGAAAGAGTGAAGATGCAGTTGGCTTCTTTCCTGGAAGACCCTCAGTACCAAGACCAGCATTCTTTGCATACAGAGGTCATCCGAACATTTGGCAGAGTCGGGCCTAATGCAGAACCCCGGTTCCGAGATGAGTTTGTTATACCACATTTACATAAATTAGCCTTGGTGAACAACTTACAAATTGTAGATTCGAAAAAACTGGACATTGCGACTCATCTTTTTGAAGCCTACAGTGCACTCTCCTGTTGTTTCATTTCAGAGGATTTAATGGTAAATCACTTCTTACCTGGCCTCAGATGTTTACGGACTGACATGGAACATCTGTCTCCAGAACATGAGGTTATTTTAAGTTCCATGATAAAAGAATGTGAACAAAAAGTAGAAAACAAGACTGTCCAAGAGCCTCCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTCTCCAGAACATGAGGT
58.11
TCACTGGAAAAGTATATCTGTTCTCA
57.87
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGTCTCCAGAACATGAGGT
58.11
CACTGGAAAAGTATATCTGTTCTCA
56.62
161
PCR template sequence:
ACATGGAACATCTGTCTCCAGAACATGAGGTTATTTTAAGTTCCATGATAAAAGAATGTGAACAAAAAGTAGAAAACAAGACTGTCCAAGAGCCTCCAGGGCATCTAAACCATTATTGAATTATATCATCTTTTGATATGGGAATATGAGAACAGATATACTTTTCCAGTGAAAGAAAGATTTATATTCTATGAAGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
22
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(3), mmu-miR-16-5p(2), mmu-miR-15a-5p(1), mmu-miR-375-3p(1), mmu-miR-103-3p(1), mmu-miR-30e-5p(1), mmu-miR-15b-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-18a-5p(1), mmu-miR-125b-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1), mmu-miR-433-3p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-411-3p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-324-3p(1), mmu-miR-107-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
AAGAGCCTCCAGGGCATCTAAACCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRELCH_1825_ORF_1
0.9527
0.035900675
0.999752082
1623
ORF sequence:
ATGTTGCAACAGATGTTAATGGAAGATAAGGCTGATTTGGTAAGAGAAGCTGTGATTAAAAGCCTGGGTATCATTATGGGCTACATTGATGATCCTGACAAATATCAACAGGGCTTTGAATTGTTGCTCTCTGCCCTGGGTGATCCCTCAGAAAGAGTTGTTAGTGCAACACACCAAGTATTTTTACCAGCCTATGCTGCCTGGACAACTGAACTTGGAAACTTACAGTCTCATCTTATACCTACACTACTGAACAAGATTGAAAAGCTTCTCAGGGAAGGAGAGCACGGGCTGGACGAACACAAGCTCCACATGTATCTTTCTGCCTTGCAGTCCTTGATCCCATCTCTCTTTGCATTAGTGCTACAGAACGCACCTTTCTCCAGCAAAGCCAAGCTGCATGGTGAAGTACCACATATTGAAGTGACTAGGTTCCCTCGGCCTATGTCACCTCTGCAAGATGTGTCTACTATTATTGGAAGTCGTGAGCAATTGGCAGTGCTACTACAACTTTATGATTACCAACTGGAACATGAAGGCACAACAGGCTGGGAGAGTTTACTCTGGGTTGTCAATCAATTGTTGCCACAGCTTATAGAAATAGTGGGCAAAATTAATGTAACCTCAACTGCCTGTGTCCATGAATTCTCCAGATTTTTCTGGCGTCTTTGCCGGACATTTGGCAAAATTTTTACAAACACTAAGGTAAAACCCCAGTTCCAAGAGATTTTAAGACTCTCTGAAGAAAATATTGATTCCTCAGCAGGAAATGGGGTCCTCACTAAAGCTACTGTCCCCATTTATGCAACAGGAGTCCTCACGTGTTACATTCAGGAAGAGGACCGAAAGCTGTTAGTTGGCTTCTTGGAAGATGTGATGACACTGCTTTCACTGTCTCATGCTCCTCTTGACAGCCTGAAGGCTTCTTTTGTGGAACTTGGTGCAAACCCGGCCTATCATGAGCTGCTGCTAACTGTTCTGTGGTATGGTGTTGTTCATACTTCTGCACTTGTCAGGTGTACTGCTGCTAGGATGTTTGAGCTGTTGGTGAAGGGGGTGAATGAGACTCTGGTAGCTCAGAGGGTTGTTCCTGCTCTCATTACTCTCTCCAGTGACCCTGAAATCTCTGTCAGGATTGCTACAATCCCAGCATTTGGCACTATTATGGAAACAGTTATTCAGAGAGAGTTGCTAGAAAGAGTGAAGATGCAGTTGGCTTCTTTCCTGGAAGACCCTCAGTACCAAGACCAGCATTCTTTGCATACAGAGGTCATCCGAACATTTGGCAGAGTCGGGCCTAATGCAGAACCCCGGTTCCGAGATGAGTTTGTTATACCACATTTACATAAATTAGCCTTGGTGAACAACTTACAAATTGTAGATTCGAAAAAACTGGACATTGCGACTCATCTTTTTGAAGCCTACAGTGCACTCTCCTGTTGTTTCATTTCAGAGGATTTAATGGTAAATCACTTCTTACCTGGCCTCAGATGTTTACGGACTGACATGGAACATCTGTCTCCAGAACATGAGGTTATTTTAAGTTCCATGATAAAAGAATGTGAACAAAAAGTAGAAAACAAGACTGTCCAAGAGCCTCCAGGGCATCTAAACCATTATTGA
Peptide sequence:
MLQQMLMEDKADLVREAVIKSLGIIMGYIDDPDKYQQGFELLLSALGDPSERVVSATHQVFLPAYAAWTTELGNLQSHLIPTLLNKIEKLLREGEHGLDEHKLHMYLSALQSLIPSLFALVLQNAPFSSKAKLHGEVPHIEVTRFPRPMSPLQDVSTIIGSREQLAVLLQLYDYQLEHEGTTGWESLLWVVNQLLPQLIEIVGKINVTSTACVHEFSRFFWRLCRTFGKIFTNTKVKPQFQEILRLSEENIDSSAGNGVLTKATVPIYATGVLTCYIQEEDRKLLVGFLEDVMTLLSLSHAPLDSLKASFVELGANPAYHELLLTVLWYGVVHTSALVRCTAARMFELLVKGVNETLVAQRVVPALITLSSDPEISVRIATIPAFGTIMETVIQRELLERVKMQLASFLEDPQYQDQHSLHTEVIRTFGRVGPNAEPRFRDEFVIPHLHKLALVNNLQIVDSKKLDIATHLFEAYSALSCCFISEDLMVNHFLPGLRCLRTDMEHLSPEHEVILSSMIKECEQKVENKTVQEPPGHLNHY
IRESfinder result
IRESfinder score
0.783484667
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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