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mmu_circSynrg_2086
Basic information of circular RNA
PanCircBase ID:
mmu_circSynrg_2086
mm39_Chr. Position ID:
chr11|83881520|83910779|+
Gene name:
Synrg
Transcript:
ENSMUST00000049714.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
10,11,12,13,14,15
Exon/intron offsets:
0,3634,11163,11478,17923,28665
Genomic length:
29259
Exon/intron sizes in nt:
24,91,34,11,36,39,33,500
Flanking exon/introns:
chr11:83880702-83881520|chr11:83910779-83914086
Splice length:
2086
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AGGGGTGTTCCTGCCATGAGCCCTGATGCTTTGAGCCAGTTCCCTGCGGCTCCCATCCCTACCTTAAGCGGCTTTCCTATGACTCTGCCTACCCCAGTGAGCCAGCCAACGGCGATGCCCTCTGGCCCTACAGGCTCCATGCCCCTCACCCTTGGACAACCCATCATGGGTATCAACCTTGTTGGACCAGTGGGTGGAGCTGCAGCACCAACTTCCAGTGGCTTCATGCCAGCCTACCCATCAAACCAGGTGGGAAAGACAGAAGAAGATGACTTCCAGGATTTTCAAGATGCTTCGAAATCAGGATCCATCGATGATTCCTTCACTGACTTCCAAGAGATGCCTGCTTCCTCAAAAACCAGTAATTCCCAGCATGGAAACAGTGCTCCATCACTCTTGATCCCATTTCCTGGAACTAAAGCCTCCACAGACAAATACGCAGTGTTCAAAGGGATTTCCACTGACAAGCCCTCTGAAAACCCTGCTTCGTTTGGAGAGTCTGGTGATAAATACAGTGCTTTCAGGGAACTCGAGCAAACGACAGACAGTAAACCTTTAGGAGAGAGCTTTGCCGAGTTCAGATCCACAGGAACCGATGATGGCTTCACTGACTTCAAGACCGCCGATAGTGTGTCACCCCTAGAGCCACCCACAAAAGACACTTTCCCATCAGCTTTTGCCTCAGGAGCTGCACAGCAGACACAGACACAGGTGAAAACCCCTCTGAACTTAGAAGATCTAGATATGTTCTCCTCAGTGGATTGCAGTGGCGAGAAACAGGTGCCCTTTTCAGCTACATTTAGCACAGCAAAGTCCGTTTCCACTCGACCTCAGCCAGCGGGCTCTGCAGCAGCGTCAGCAGCACTGGCATCCACTAAAACTTCTAGTTTGGCAGATGATTTTGGAGAGTTCAACCTCTTTGGGGAGTATTCAAACCCTGCATCTGCTGGGGAGCAGGACGACTTTGCAGATTTTATGGCTTTCGGTAACAGCTCCATTTCATCTGAGCCAAAAGCAAGTGACAAGTATGAAGCCCTCAGGGAGGAAGTGAGTCCCAGCCCCTTGTCCAGCAGCACTGTGGAAGGGGCACAGCACCCACCTGCTGCGGCAACCAAGTATGATGTCTTCAAACAGCTGTCCCTAGAGGGCGCTGGGCTGGCCATGGAGGAGTTCAAAGAGAACACTTCCTCCACCAAGAGTGAAGATGACTTTGCCGACTTCCACTCCAGTAAATTCTCATCCACGAGCTCAGACAAATCCCTGGGAGAGAAAGCCGTGGCTTTCAGACATGCCAAAGAAGACTCCTCCTCGGTGAAGTCTTTAGACCTCCCCTCCATCGGTGGCAGCAGTGTTGGCAAGGAGGACTCTGAAGATGCACTTTCTGTTCAATTTGACATGAAATTGGCTGATGTGGGAGGAGATCTTAAGCATGTCATGTCTGATAGCTCTTTGGATTTACCAACAGTTAGTGGCCAGCATCCTCCTGCCGCAGATACAGAGGACTTAAGCTGTGCTGCTTTTGGAAGCTGTAGTAGCCATTTTACAGTGAGCACACTTACAAGCTGTGAATGGTCAGACAGGGCTGATGCACTTCAGGGCAGAAAACTCTCTCCATTTGTCCTCTCAGCAGGAAGTAGGTCCTTTTCAGCCACCTCAAACCTTCACACGAAAGAGATCTCATTTGGCAGCTCTGAAAACATCACCATGTCATCTCTCTCCAAAGGATCGGCCTTGGCCAGTGAGGACGCTCTTCCAGAGACTGCCTTCCCAGCTTTTGCCAGCTTTAAAGACATGATGCCTCAGACCACTGAGCAGAAAGAGTTTGAAAGTGGGGACTTCCAGGATTTCACCAGGCAGGACATGCCCACGGTGGACCGCAGCCAAGAAACCTCATGTCCAAGCCCGGCTTCCAGTGTGGCTTCGCACGAGACCCCCAAGGAGGGTGCAGACGACTTTGGAGAATTTCAAAGTGAAAAGTCCAAAATCAGCAAGTTTGACTTCTTAGTAGCTAATTCCCAGAGCAAAATGAAATCCAGTGAAGAAATGATCAAAAGTGAGCTGGCAACCTTTGACCTTTCTGTTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAAAAGTGAGCTGGCAACC
59.38
TCACTGGGGTAGGCAGAGTC
60.61
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATCAAAAGTGAGCTGGCA
57.72
ACTGGGGTAGGCAGAGTCAT
59.96
140
PCR template sequence:
AGCAAGTTTGACTTCTTAGTAGCTAATTCCCAGAGCAAAATGAAATCCAGTGAAGAAATGATCAAAAGTGAGCTGGCAACCTTTGACCTTTCTGTTCAAGAGGGGTGTTCCTGCCATGAGCCCTGATGCTTTGAGCCAGTTCCCTGCGGCTCCCATCCCTACCTTAAGCGGCTTTCCTATGACTCTGCCTACCCCAGTGA
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-320-3p(2), mmu-miR-670-5p(2), mmu-miR-15a-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-135a-5p(1), mmu-miR-15b-5p(1), mmu-miR-125b-5p(1), mmu-miR-24-3p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-22-3p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-188-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTCTGTTCAAGAGGGGTGTTCCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSYNRG_2086_ORF_1
0.9369
0.222994892
0.999996067
2097
ORF sequence:
ATGAGCCCTGATGCTTTGAGCCAGTTCCCTGCGGCTCCCATCCCTACCTTAAGCGGCTTTCCTATGACTCTGCCTACCCCAGTGAGCCAGCCAACGGCGATGCCCTCTGGCCCTACAGGCTCCATGCCCCTCACCCTTGGACAACCCATCATGGGTATCAACCTTGTTGGACCAGTGGGTGGAGCTGCAGCACCAACTTCCAGTGGCTTCATGCCAGCCTACCCATCAAACCAGGTGGGAAAGACAGAAGAAGATGACTTCCAGGATTTTCAAGATGCTTCGAAATCAGGATCCATCGATGATTCCTTCACTGACTTCCAAGAGATGCCTGCTTCCTCAAAAACCAGTAATTCCCAGCATGGAAACAGTGCTCCATCACTCTTGATCCCATTTCCTGGAACTAAAGCCTCCACAGACAAATACGCAGTGTTCAAAGGGATTTCCACTGACAAGCCCTCTGAAAACCCTGCTTCGTTTGGAGAGTCTGGTGATAAATACAGTGCTTTCAGGGAACTCGAGCAAACGACAGACAGTAAACCTTTAGGAGAGAGCTTTGCCGAGTTCAGATCCACAGGAACCGATGATGGCTTCACTGACTTCAAGACCGCCGATAGTGTGTCACCCCTAGAGCCACCCACAAAAGACACTTTCCCATCAGCTTTTGCCTCAGGAGCTGCACAGCAGACACAGACACAGGTGAAAACCCCTCTGAACTTAGAAGATCTAGATATGTTCTCCTCAGTGGATTGCAGTGGCGAGAAACAGGTGCCCTTTTCAGCTACATTTAGCACAGCAAAGTCCGTTTCCACTCGACCTCAGCCAGCGGGCTCTGCAGCAGCGTCAGCAGCACTGGCATCCACTAAAACTTCTAGTTTGGCAGATGATTTTGGAGAGTTCAACCTCTTTGGGGAGTATTCAAACCCTGCATCTGCTGGGGAGCAGGACGACTTTGCAGATTTTATGGCTTTCGGTAACAGCTCCATTTCATCTGAGCCAAAAGCAAGTGACAAGTATGAAGCCCTCAGGGAGGAAGTGAGTCCCAGCCCCTTGTCCAGCAGCACTGTGGAAGGGGCACAGCACCCACCTGCTGCGGCAACCAAGTATGATGTCTTCAAACAGCTGTCCCTAGAGGGCGCTGGGCTGGCCATGGAGGAGTTCAAAGAGAACACTTCCTCCACCAAGAGTGAAGATGACTTTGCCGACTTCCACTCCAGTAAATTCTCATCCACGAGCTCAGACAAATCCCTGGGAGAGAAAGCCGTGGCTTTCAGACATGCCAAAGAAGACTCCTCCTCGGTGAAGTCTTTAGACCTCCCCTCCATCGGTGGCAGCAGTGTTGGCAAGGAGGACTCTGAAGATGCACTTTCTGTTCAATTTGACATGAAATTGGCTGATGTGGGAGGAGATCTTAAGCATGTCATGTCTGATAGCTCTTTGGATTTACCAACAGTTAGTGGCCAGCATCCTCCTGCCGCAGATACAGAGGACTTAAGCTGTGCTGCTTTTGGAAGCTGTAGTAGCCATTTTACAGTGAGCACACTTACAAGCTGTGAATGGTCAGACAGGGCTGATGCACTTCAGGGCAGAAAACTCTCTCCATTTGTCCTCTCAGCAGGAAGTAGGTCCTTTTCAGCCACCTCAAACCTTCACACGAAAGAGATCTCATTTGGCAGCTCTGAAAACATCACCATGTCATCTCTCTCCAAAGGATCGGCCTTGGCCAGTGAGGACGCTCTTCCAGAGACTGCCTTCCCAGCTTTTGCCAGCTTTAAAGACATGATGCCTCAGACCACTGAGCAGAAAGAGTTTGAAAGTGGGGACTTCCAGGATTTCACCAGGCAGGACATGCCCACGGTGGACCGCAGCCAAGAAACCTCATGTCCAAGCCCGGCTTCCAGTGTGGCTTCGCACGAGACCCCCAAGGAGGGTGCAGACGACTTTGGAGAATTTCAAAGTGAAAAGTCCAAAATCAGCAAGTTTGACTTCTTAGTAGCTAATTCCCAGAGCAAAATGAAATCCAGTGAAGAAATGATCAAAAGTGAGCTGGCAACCTTTGACCTTTCTGTTCAAGAGGGGTGTTCCTGCCATGAGCCCTGA
Peptide sequence:
MSPDALSQFPAAPIPTLSGFPMTLPTPVSQPTAMPSGPTGSMPLTLGQPIMGINLVGPVGGAAAPTSSGFMPAYPSNQVGKTEEDDFQDFQDASKSGSIDDSFTDFQEMPASSKTSNSQHGNSAPSLLIPFPGTKASTDKYAVFKGISTDKPSENPASFGESGDKYSAFRELEQTTDSKPLGESFAEFRSTGTDDGFTDFKTADSVSPLEPPTKDTFPSAFASGAAQQTQTQVKTPLNLEDLDMFSSVDCSGEKQVPFSATFSTAKSVSTRPQPAGSAAASAALASTKTSSLADDFGEFNLFGEYSNPASAGEQDDFADFMAFGNSSISSEPKASDKYEALREEVSPSPLSSSTVEGAQHPPAAATKYDVFKQLSLEGAGLAMEEFKENTSSTKSEDDFADFHSSKFSSTSSDKSLGEKAVAFRHAKEDSSSVKSLDLPSIGGSSVGKEDSEDALSVQFDMKLADVGGDLKHVMSDSSLDLPTVSGQHPPAADTEDLSCAAFGSCSSHFTVSTLTSCEWSDRADALQGRKLSPFVLSAGSRSFSATSNLHTKEISFGSSENITMSSLSKGSALASEDALPETAFPAFASFKDMMPQTTEQKEFESGDFQDFTRQDMPTVDRSQETSCPSPASSVASHETPKEGADDFGEFQSEKSKISKFDFLVANSQSKMKSSEEMIKSELATFDLSVQEGCSCHEP
IRESfinder result
IRESfinder score
0.541889445
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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