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mmu_circAdgra3_889
Basic information of circular RNA
PanCircBase ID:
mmu_circAdgra3_889
mm39_Chr. Position ID:
chr5|50144815|50159361|-
Gene name:
Adgra3
Transcript:
ENSMUST00000030971.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,2651,10741,11659,14381
Genomic length:
14546
Exon/intron sizes in nt:
204,162,156,202,165
Flanking exon/introns:
chr5:50136915-50144815|chr5:50159361-50164090
Splice length:
889
Other database IDs:
circBase: mmu_circ_0012676, CIRCpedia: MMU_CIRCpedia_21715, circAtlas: mmu-Gpr125_0010
CIRCpedia: HSA_CIRCpedia_153706
Human Ortholog IDs:
Mature spliced Sequence:
TGCCCTAACCATTTCTAATATTCAAGCTGGATCTACTGGAAATTGGGGCTGTCATGTTCAGACGAAACGTGGGAATAACACAAGAACTGTTGACATTGTGGTATTAGAAAGCTCCGCCCAATACTGTCCACCAGAGAGGGTTGTGAACAACAAAGGTGATTTCAGATGGCCCAGGACACTGGCGGGCATCACAGCATATCTCCAGTGTACCCGGAACACCCACAGCAGTGGGATCTACCCTGGAAGCGCACAGGATGAAAGGAAGGCGTGGCGCCGATGCGACAGAGGTGGCTTTTGGGCAGATGATGATTATTCTAGGTGCCAGTATGCAAATGACGTCACTAGAGTCCTGTATATGTTTAATCAGATGCCCCTCAACCTTACAAATGCGGTCGCTACAGCTCGGCAGCTGCTGGCTTACACAGTGGAGGCCGCCAACTTCTCTGACAAAATGGACGTTATATTTGTGGCTGAAATGATAGAAAAGTTTGGAAGATTTACCAGAGAGGAAAAATCAAAAGAGCTTGGTGATGTAATGGTCGATGTGGCAAGCAACATCATGTTGGCTGATGAGCGGGTCCTGTGGCTGGCACAGAGGGAAGCAAAGGCCTGCAGTCGGATTGTCCAGTGCCTGCAGCGCATTGCCACACATCGCCTGGCCAGTGGGGCCCACGTGTACTCCACGTACTCGCCCAACATTGCTCTGGAGGCTTACGTCATCAAGGCTGCTGGCTTCACAGGAATGACCTGCTCCGTGTTCCAGAAGGTGGCTGCCTCCGACCGTGCAGGTCTTTCTGACTATGGGCGAAGGGACCCGGATGGAAACCTGGATAAGCAGCTGAGCTTCAAATGCAATGTCTCCAGCACCTTCTCAAGCCTGGCCCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGACTATGGGCGAAGGGA
60.03
GTCTGAACATGACAGCCCCA
59.96
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGACTATGGGCGAAGGGA
60.03
TCGTCTGAACATGACAGCCC
60.04
161
PCR template sequence:
TCTTTCTGACTATGGGCGAAGGGACCCGGATGGAAACCTGGATAAGCAGCTGAGCTTCAAATGCAATGTCTCCAGCACCTTCTCAAGCCTGGCCCTGAAGTGCCCTAACCATTTCTAATATTCAAGCTGGATCTACTGGAAATTGGGGCTGTCATGTTCAGACGAAACGTGGGAATAACACAAGAACTGTTGACATTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-22-3p(1), mmu-miR-127-5p(1), mmu-miR-680(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGGCCCTGAAGTGCCCTAACCATT
siRNA sets
AATGGTTAGGGCACTTCAG, ATGGTTAGGGCACTTCAGG, TGGTTAGGGCACTTCAGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADGRA3_889_ORF_1
1.1251
0.372219255
0.909937613
552
ORF sequence:
ATGTTTAATCAGATGCCCCTCAACCTTACAAATGCGGTCGCTACAGCTCGGCAGCTGCTGGCTTACACAGTGGAGGCCGCCAACTTCTCTGACAAAATGGACGTTATATTTGTGGCTGAAATGATAGAAAAGTTTGGAAGATTTACCAGAGAGGAAAAATCAAAAGAGCTTGGTGATGTAATGGTCGATGTGGCAAGCAACATCATGTTGGCTGATGAGCGGGTCCTGTGGCTGGCACAGAGGGAAGCAAAGGCCTGCAGTCGGATTGTCCAGTGCCTGCAGCGCATTGCCACACATCGCCTGGCCAGTGGGGCCCACGTGTACTCCACGTACTCGCCCAACATTGCTCTGGAGGCTTACGTCATCAAGGCTGCTGGCTTCACAGGAATGACCTGCTCCGTGTTCCAGAAGGTGGCTGCCTCCGACCGTGCAGGTCTTTCTGACTATGGGCGAAGGGACCCGGATGGAAACCTGGATAAGCAGCTGAGCTTCAAATGCAATGTCTCCAGCACCTTCTCAAGCCTGGCCCTGAAGTGCCCTAACCATTTCTAA
Peptide sequence:
MFNQMPLNLTNAVATARQLLAYTVEAANFSDKMDVIFVAEMIEKFGRFTREEKSKELGDVMVDVASNIMLADERVLWLAQREAKACSRIVQCLQRIATHRLASGAHVYSTYSPNIALEAYVIKAAGFTGMTCSVFQKVAASDRAGLSDYGRRDPDGNLDKQLSFKCNVSSTFSSLALKCPNHF
IRESfinder result
IRESfinder score
0.336583793
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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