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mmu_circOphn1_892
Basic information of circular RNA
PanCircBase ID:
mmu_circOphn1_892
mm39_Chr. Position ID:
chrX|97739604|97776072|-
Gene name:
Ophn1
Transcript:
ENSMUST00000033560.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
15,14,13,12,11,10,9,8,7,6
Exon/intron offsets:
0,2288,2857,5866,9031,14079,16342,18108,30006,36366
Genomic length:
36468
Exon/intron sizes in nt:
75,63,34,79,92,10,11,30,00,00,00,000
Flanking exon/introns:
chrX:97688600-97739604|chrX:97776072-97807310
Splice length:
892
Other database IDs:
CIRCpedia: MMU_CIRCpedia_227698, circAtlas: mmu-Ophn1_0010
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGGAAGAAGAAATTTGAAAAGGATGGTGAGAGGTTTTACTCGCTACTGGACCGCCACTTACATCTGTCATCCAAAAAGAAAGAATCTCAGCTACTAGAGGCAGACCTCCAAGTGGATAAGGAAAGGCACAATTTCTTTGAATCATCTCTTGACTATGTTTATCAAATTCAGGAAGTCCAGGAGTCAAAGAAGTTCAATATTGTGGAGCCGGTCTTGGCCTTCCTTCATAGCCTCTTCATTTCTAACAGCTTGACTGTGGAGCTCACACAGGATTTCCTGCCATACAAACAACAGCTGCAGCTCAGCTTACAGAATACAAGAAATCATTTCTCCAGTACCCGGGAGGAGATGGAAGAACTTAAGAAAAGGATGAAAGAAGCCCCTCAGACATGCAAACTTCCAGGACAGCCAACCATTGAAGGCTATCTCTACACACAGGAGAAATGGGCCCTGGGGATATCCTGGGCGAAATACTATTGTCGGTATGAGAAAGAGACCAGGATGCTCACAATGATACCAATGGAACAGAAGCCAGGTGCTAAGCAGGGACCGGTGGACTTAACTTTGAAGTACTGCGTGAGAAGGAAGACAGAGTCAATTGACAAGAGATTCTGTTTTGATATAGAAACTAATGAAAGACCTGGAACCATCACTCTGCAGGCGCCTTCCGAAGCCAATAGAAGGCTATGGATGGAAGCCATGGATGGCAAAGAACCTATCTACCACACTCCTATAACAAAACAGGAAGAAATGGAGCTGAATGAAGTGGGGTTCAAATTTGTTAGGAAGTGCATCAATTTTATTGAGACCAAAGGGATCAAGACAGAAGGGCTGTACCGCACCGTGGGCAGCAACATCCAGGTTCAGAAGCTGCTCTATGCCTTTTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGATCAAGACAGAAGGGCT
59.08
CAGATGTAAGTGGCGGTCCA
59.75
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGATCAAGACAGAAGGGC
59.08
CAGATGTAAGTGGCGGTCCA
59.75
146
PCR template sequence:
TGCATCAATTTTATTGAGACCAAAGGGATCAAGACAGAAGGGCTGTACCGCACCGTGGGCAGCAACATCCAGGTTCAGAAGCTGCTCTATGCCTTTTTTGGAAAGGAAGAAGAAATTTGAAAAGGATGGTGAGAGGTTTTACTCGCTACTGGACCGCCACTTACATCTGTCATCCAAAAAGAAAGAATCTCAGCTACTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-122-5p(1), mmu-miR-136-5p(1), mmu-miR-434-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-129-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1), mmu-miR-3105-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TATGCCTTTTTTGGAAAGGAAGAAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCOPHN1_892_ORF_1
0.7918
0.154893081
0.984955541
1020
ORF sequence:
ATGAAGTGGGGTTCAAATTTGTTAGGAAGTGCATCAATTTTATTGAGACCAAAGGGATCAAGACAGAAGGGCTGTACCGCACCGTGGGCAGCAACATCCAGGTTCAGAAGCTGCTCTATGCCTTTTTTGGAAAGGAAGAAGAAATTTGAAAAGGATGGTGAGAGGTTTTACTCGCTACTGGACCGCCACTTACATCTGTCATCCAAAAAGAAAGAATCTCAGCTACTAGAGGCAGACCTCCAAGTGGATAAGGAAAGGCACAATTTCTTTGAATCATCTCTTGACTATGTTTATCAAATTCAGGAAGTCCAGGAGTCAAAGAAGTTCAATATTGTGGAGCCGGTCTTGGCCTTCCTTCATAGCCTCTTCATTTCTAACAGCTTGACTGTGGAGCTCACACAGGATTTCCTGCCATACAAACAACAGCTGCAGCTCAGCTTACAGAATACAAGAAATCATTTCTCCAGTACCCGGGAGGAGATGGAAGAACTTAAGAAAAGGATGAAAGAAGCCCCTCAGACATGCAAACTTCCAGGACAGCCAACCATTGAAGGCTATCTCTACACACAGGAGAAATGGGCCCTGGGGATATCCTGGGCGAAATACTATTGTCGGTATGAGAAAGAGACCAGGATGCTCACAATGATACCAATGGAACAGAAGCCAGGTGCTAAGCAGGGACCGGTGGACTTAACTTTGAAGTACTGCGTGAGAAGGAAGACAGAGTCAATTGACAAGAGATTCTGTTTTGATATAGAAACTAATGAAAGACCTGGAACCATCACTCTGCAGGCGCCTTCCGAAGCCAATAGAAGGCTATGGATGGAAGCCATGGATGGCAAAGAACCTATCTACCACACTCCTATAACAAAACAGGAAGAAATGGAGCTGAATGAAGTGGGGTTCAAATTTGTTAGGAAGTGCATCAATTTTATTGAGACCAAAGGGATCAAGACAGAAGGGCTGTACCGCACCGTGGGCAGCAACATCCAGGTTCAGAAGCTGCTCTATGCCTTTTTT
Peptide sequence:
MKWGSNLLGSASILLRPKGSRQKGCTAPWAATSRFRSCSMPFLERKKKFEKDGERFYSLLDRHLHLSSKKKESQLLEADLQVDKERHNFFESSLDYVYQIQEVQESKKFNIVEPVLAFLHSLFISNSLTVELTQDFLPYKQQLQLSLQNTRNHFSSTREEMEELKKRMKEAPQTCKLPGQPTIEGYLYTQEKWALGISWAKYYCRYEKETRMLTMIPMEQKPGAKQGPVDLTLKYCVRRKTESIDKRFCFDIETNERPGTITLQAPSEANRRLWMEAMDGKEPIYHTPITKQEEMELNEVGFKFVRKCINFIETKGIKTEGLYRTVGSNIQVQKLLYAFF
IRESfinder result
IRESfinder score
0.594055624
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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