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mmu_circAtp7a_1160
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp7a_1160
mm39_Chr. Position ID:
chrX|105145465|105158842|+
Gene name:
Atp7a
Transcript:
ENSMUST00000113557.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
12,13,14,15,16,17,18
Exon/intron offsets:
0,487,852,3287,5324,7901,13230
Genomic length:
13377
Exon/intron sizes in nt:
128,155,135,195,183,217,147
Flanking exon/introns:
chrX:105144224-105145465|chrX:105158842-105161857
Splice length:
1160
Other database IDs:
circBase: mmu_circ_0016074, CIRCpedia: MMU_CIRCpedia_30836, circAtlas: mmu-Atp7a_0006
Human Ortholog IDs:
Mature spliced Sequence:
TGAAGAACAAGTGGATGTGGAACTTGTACAACGTGGAGATATCATTAAGGTTGTTCCAGGAGGCAAATTTCCAGTGGATGGCCGTGTTATTGAAGGACATTCTATGGTGGACGAGTCCCTCATCACAGGGGAGGCAATGCCTGTGGCTAAGAAACCTGGCAGCACGGTGATTGCAGGTTCCATTAACCAGAATGGATCTCTCCTCATCCGAGCAACACATGTGGGAGCAGATACAACCCTTTCTCAGATCGTCAAACTTGTGGAGGAGGCACAGACATCAAAGGCTCCTATCCAGCAGTTTGCAGACAAACTCAGTGGCTACTTTGTTCCTTTCATCGTCTTGGTTTCCATTGTTACCCTCTTGGTGTGGATTATAATTGGATTTCAAAATTTTGAAATTGTGGAAACCTACTTTCCCGGCTATAATAGAAGCATCTCCCGAACAGAAACCATAATACGCTTTGCTTTCCAAGCCTCTATCACGGTTCTGTGTATCGCATGTCCCTGTTCACTGGGACTAGCCACTCCAACTGCTGTGATGGTGGGCACAGGAGTAGGTGCTCAGAATGGCATACTTATCAAAGGTGGGGAGCCACTGGAAATGGCTCATAAGGTAAAGGTAGTGGTATTTGATAAGACTGGAACCATCACCCATGGAACCCCAGTAGTGAATCAAGTGAAGGTTCTCGTGGAAAGTAACAAGATATCACGCAATAAGATCCTGGCCATTGTGGGGACTGCAGAAAGTAACAGTGAACATCCTTTAGGAGCAGCTGTAACCAAATATTGCAAAAAGGAGCTGGACACTGAAACCCTGGGTACCTGTACAGATTTCCAGGTTGTACCAGGCTGTGGTATTAGCTGTAAAGTCACCAATATTGAAGGTTTGCTACATAAGAGTAACTTGAAGATAGAAGAAAATAACATTAAAAATGCATCCCTGGTTCAAATTGATGCAATTAATGAACAGTCATCAACTTCATCTTCTATGATTATTGATGCTCATCTCTCAAATGCTGTTAATACTCAGCAGTACAAAGTCCTCATTGGTAACCGGGAATGGATGATTAGAAATGGTCTTGTCATAAGTAATGATGTAGATGAATCTATGATTGAACATGAAAGAAGAGGTCGGACTGCTGTCTTGGTGACAATCGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAAGAAGAGGTCGGACTGC
60
TGTCCTTCAATAACACGGCCA
59.93
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAAGAAGAGGTCGGACTGC
60
TGTCCTTCAATAACACGGCC
58.18
140
PCR template sequence:
TGGATGATTAGAAATGGTCTTGTCATAAGTAATGATGTAGATGAATCTATGATTGAACATGAAAGAAGAGGTCGGACTGCTGTCTTGGTGACAATCGATGTGAAGAACAAGTGGATGTGGAACTTGTACAACGTGGAGATATCATTAAGGTTGTTCCAGGAGGCAAATTTCCAGTGGATGGCCGTGTTATTGAAGGACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-143-3p(1), mmu-miR-1198-5p(1), mmu-miR-129-5p(1), mmu-miR-188-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGACAATCGATGTGAAGAACAAGTG
siRNA sets
TTGTTCTTCACATCGATTG, TCTTCACATCGATTGTCAC, GTTCTTCACATCGATTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP7A_1160_ORF_1
1.0894
0.129168159
0.997786852
1227
ORF sequence:
ATGGTGGACGAGTCCCTCATCACAGGGGAGGCAATGCCTGTGGCTAAGAAACCTGGCAGCACGGTGATTGCAGGTTCCATTAACCAGAATGGATCTCTCCTCATCCGAGCAACACATGTGGGAGCAGATACAACCCTTTCTCAGATCGTCAAACTTGTGGAGGAGGCACAGACATCAAAGGCTCCTATCCAGCAGTTTGCAGACAAACTCAGTGGCTACTTTGTTCCTTTCATCGTCTTGGTTTCCATTGTTACCCTCTTGGTGTGGATTATAATTGGATTTCAAAATTTTGAAATTGTGGAAACCTACTTTCCCGGCTATAATAGAAGCATCTCCCGAACAGAAACCATAATACGCTTTGCTTTCCAAGCCTCTATCACGGTTCTGTGTATCGCATGTCCCTGTTCACTGGGACTAGCCACTCCAACTGCTGTGATGGTGGGCACAGGAGTAGGTGCTCAGAATGGCATACTTATCAAAGGTGGGGAGCCACTGGAAATGGCTCATAAGGTAAAGGTAGTGGTATTTGATAAGACTGGAACCATCACCCATGGAACCCCAGTAGTGAATCAAGTGAAGGTTCTCGTGGAAAGTAACAAGATATCACGCAATAAGATCCTGGCCATTGTGGGGACTGCAGAAAGTAACAGTGAACATCCTTTAGGAGCAGCTGTAACCAAATATTGCAAAAAGGAGCTGGACACTGAAACCCTGGGTACCTGTACAGATTTCCAGGTTGTACCAGGCTGTGGTATTAGCTGTAAAGTCACCAATATTGAAGGTTTGCTACATAAGAGTAACTTGAAGATAGAAGAAAATAACATTAAAAATGCATCCCTGGTTCAAATTGATGCAATTAATGAACAGTCATCAACTTCATCTTCTATGATTATTGATGCTCATCTCTCAAATGCTGTTAATACTCAGCAGTACAAAGTCCTCATTGGTAACCGGGAATGGATGATTAGAAATGGTCTTGTCATAAGTAATGATGTAGATGAATCTATGATTGAACATGAAAGAAGAGGTCGGACTGCTGTCTTGGTGACAATCGATGTGAAGAACAAGTGGATGTGGAACTTGTACAACGTGGAGATATCATTAAGGTTGTTCCAGGAGGCAAATTTCCAGTGGATGGCCGTGTTATTGAAGGACATTCTATGGTGGACGAGTCCCTCATCACAGGGGAGGCAATGCCTGTGGCTAAGAAACCTGGCAGCACGGTGA
Peptide sequence:
MVDESLITGEAMPVAKKPGSTVIAGSINQNGSLLIRATHVGADTTLSQIVKLVEEAQTSKAPIQQFADKLSGYFVPFIVLVSIVTLLVWIIIGFQNFEIVETYFPGYNRSISRTETIIRFAFQASITVLCIACPCSLGLATPTAVMVGTGVGAQNGILIKGGEPLEMAHKVKVVVFDKTGTITHGTPVVNQVKVLVESNKISRNKILAIVGTAESNSEHPLGAAVTKYCKKELDTETLGTCTDFQVVPGCGISCKVTNIEGLLHKSNLKIEENNIKNASLVQIDAINEQSSTSSSMIIDAHLSNAVNTQQYKVLIGNREWMIRNGLVISNDVDESMIEHERRGRTAVLVTIDVKNKWMWNLYNVEISLRLFQEANFQWMAVLLKDILWWTSPSSQGRQCLWLRNLAAR
IRESfinder result
IRESfinder score
0.637030335
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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