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mmu_circAtp6v1h_588
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v1h_588
mm39_Chr. Position ID:
chr1|5194499|5220284|+
Gene name:
Atp6v1h
Transcript:
ENSMUST00000192847.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
9,10,11,12
Exon/intron offsets:
0,8807,19473,25671
Genomic length:
25785
Exon/intron sizes in nt:
1,93,17,91,02,114
Flanking exon/introns:
chr1:5187710-5194499|chr1:5220284-5232327
Splice length:
588
Other database IDs:
CIRCpedia: MMU_CIRCpedia_217900, circAtlas: mmu-Atp6v1h_0030
Human Ortholog IDs:
Mature spliced Sequence:
TATAATGGGCGTTTTGAGTAACAAGTGTGGTTTTCAACTTCAATACCAAATGATTTTTTCAATATGGCTCCTGGCATTCAGTCCTCAAATGTGTGAGCACCTTCGTCGCTATAATATCATTCCTGTTCTATCAGACATCCTTCAAGAATCTGTCAAAGAGAAAGTAACAAGAATCATTCTTGCAGCATTCCGGAATTTCTTAGAAAAATCAACGGAAAGAGAAACTCGCCAAGAGTATGCTCTGGCTATGATTCAATGCAAAGTACTGAAACAGTTGGAGAATTTGGAGCAGCAGAAGTATGATGATGAAGATATCAGTGAAGACATCAAATTTCTTTTGGAAAAACTTGGTGAGAGTGTCCAGGACCTTAGAATCTTGACAAAACTTCTGGAGGTATCAGATGATCCACAAGTCTTAGCTGTTGCTGCTCACGATGTTGGAGAATATGTCCGGCATTATCCCCGGGGAAAACGGGTTATTGAGCAGCTTGGTGGAAAGCAGTTGGTGATGAACCACATGCACCATGAAGACCAGCAGGTTCGCTACAATGCTCTTCTGGCCGTGCAGAAGCTCATGGTGCACAACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGGTTCGCTACAATGCT
60.04
TGCTCACACATTTGAGGACTGA
59.9
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCACCATGAAGACCAGCA
59.96
TGCTCACACATTTGAGGACTGA
59.9
170
PCR template sequence:
TTGGTGGAAAGCAGTTGGTGATGAACCACATGCACCATGAAGACCAGCAGGTTCGCTACAATGCTCTTCTGGCCGTGCAGAAGCTCATGGTGCACAACTGTATAATGGGCGTTTTGAGTAACAAGTGTGGTTTTCAACTTCAATACCAAATGATTTTTTCAATATGGCTCCTGGCATTCAGTCCTCAAATGTGTGAGCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-499-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGGTGCACAACTGTATAATGGGCGTT
siRNA sets
AACGCCCATTATACAGTTG, ATTATACAGTTGTGCACCA, CATTATACAGTTGTGCACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP6V1H_588_ORF_1
1.1126
0.182435765
0.997496236
1170
ORF sequence:
ATGGGCGTTTTGAGTAACAAGTGTGGTTTTCAACTTCAATACCAAATGATTTTTTCAATATGGCTCCTGGCATTCAGTCCTCAAATGTGTGAGCACCTTCGTCGCTATAATATCATTCCTGTTCTATCAGACATCCTTCAAGAATCTGTCAAAGAGAAAGTAACAAGAATCATTCTTGCAGCATTCCGGAATTTCTTAGAAAAATCAACGGAAAGAGAAACTCGCCAAGAGTATGCTCTGGCTATGATTCAATGCAAAGTACTGAAACAGTTGGAGAATTTGGAGCAGCAGAAGTATGATGATGAAGATATCAGTGAAGACATCAAATTTCTTTTGGAAAAACTTGGTGAGAGTGTCCAGGACCTTAGAATCTTGACAAAACTTCTGGAGGTATCAGATGATCCACAAGTCTTAGCTGTTGCTGCTCACGATGTTGGAGAATATGTCCGGCATTATCCCCGGGGAAAACGGGTTATTGAGCAGCTTGGTGGAAAGCAGTTGGTGATGAACCACATGCACCATGAAGACCAGCAGGTTCGCTACAATGCTCTTCTGGCCGTGCAGAAGCTCATGGTGCACAACTGTATAATGGGCGTTTTGAGTAACAAGTGTGGTTTTCAACTTCAATACCAAATGATTTTTTCAATATGGCTCCTGGCATTCAGTCCTCAAATGTGTGAGCACCTTCGTCGCTATAATATCATTCCTGTTCTATCAGACATCCTTCAAGAATCTGTCAAAGAGAAAGTAACAAGAATCATTCTTGCAGCATTCCGGAATTTCTTAGAAAAATCAACGGAAAGAGAAACTCGCCAAGAGTATGCTCTGGCTATGATTCAATGCAAAGTACTGAAACAGTTGGAGAATTTGGAGCAGCAGAAGTATGATGATGAAGATATCAGTGAAGACATCAAATTTCTTTTGGAAAAACTTGGTGAGAGTGTCCAGGACCTTAGAATCTTGACAAAACTTCTGGAGGTATCAGATGATCCACAAGTCTTAGCTGTTGCTGCTCACGATGTTGGAGAATATGTCCGGCATTATCCCCGGGGAAAACGGGTTATTGAGCAGCTTGGTGGAAAGCAGTTGGTGATGAACCACATGCACCATGAAGACCAGCAGGTTCGCTACAATGCTCTTCTGGCCGTGCAGAAGCTCATGGTGCACAAC
Peptide sequence:
MGVLSNKCGFQLQYQMIFSIWLLAFSPQMCEHLRRYNIIPVLSDILQESVKEKVTRIILAAFRNFLEKSTERETRQEYALAMIQCKVLKQLENLEQQKYDDEDISEDIKFLLEKLGESVQDLRILTKLLEVSDDPQVLAVAAHDVGEYVRHYPRGKRVIEQLGGKQLVMNHMHHEDQQVRYNALLAVQKLMVHNCIMGVLSNKCGFQLQYQMIFSIWLLAFSPQMCEHLRRYNIIPVLSDILQESVKEKVTRIILAAFRNFLEKSTERETRQEYALAMIQCKVLKQLENLEQQKYDDEDISEDIKFLLEKLGESVQDLRILTKLLEVSDDPQVLAVAAHDVGEYVRHYPRGKRVIEQLGGKQLVMNHMHHEDQQVRYNALLAVQKLMVHN
IRESfinder result
IRESfinder score
0.591247022
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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