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mmu_circJph1_879
Basic information of circular RNA
PanCircBase ID:
mmu_circJph1_879
mm39_Chr. Position ID:
chr1|17086262|17162281|-
Gene name:
Jph1
Transcript:
ENSMUST00000038382.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,75259
Genomic length:
76019
Exon/intron sizes in nt:
1,19,760
Flanking exon/introns:
chr1:17074758-17086262|chr1:17162281-17167449
Splice length:
879
Other database IDs:
circAtlas: mmu-Jph1_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_170819
Human Ortholog IDs:
Mature spliced Sequence:
GTACCTACCAGGGCCAGTGGGCTGGAGGCATGCGGCATGGCTACGGTGTCCGCCAGAGTGTGCCCTATGGCATGGCCACAGTGATCCGTTCCCCGCTGCGCACTTCCCTGGCCTCGCTGCGCAGTGAGCAGAGCAACGGCAGCGTGCTGCATGAAGCTGCAGCCGCAGCTGCAGACAGCCCGGCTGGAACAAGAGGTGGCTTCGTGCTCAACTTCCATGCGGACACGGAACTGGGCAAGAAGAAGGGCGGCCTCTTCCGTCGGGGTTCCCTTCTCGGCAGCATGAAACTCCGCAAGTCCGAATCCAAGTCTTCCATCTCCAGCAAGCGCAGCTCGGTCCGCAGTGATGCAGCCATGAGCAGAATCAGTTCTAGCGATGCCAACTCCACCATCAGCTTTGGTGACGTCGACTGTGATTTTTGCCCCGTGGAAGATCACGTGGATGCCACTACCACGGAAACCTACATGGGCGAGTGGAAGAACGATAAGCGCAATGGCTTCGGCATCAGCGAACGCTCCAATGGCATGAAGTACGAAGGCGAGTGGGCCAATAACAAGAGGCATGGGTACGGCTGCACTGTGTTTCCTGATGGCTCCAAAGAAGAGGGAAAATACAAAAATAATATCCTGGTCCGTGGGATAAGGAAGCAGCTTATACCAATAAGAAATACAAAAACTAGAGAGAAGGTGGATAGAGCAATTGAAGGTGCACAAAGGGCGGCAGCCATGGCCAGAACCAAAGTGGAAATAGCAAACTCAAGGACTGCACATGCCAGAGCAAAAGCTGATGCTGCCGACCAAGCTGCACTGGCTGCTCGCCAGGAGTGCGACATAGCAAGAGCTGTGGCCAGAGAGCTGTCACCTGATTTCTACCAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGAGCTGTGGCCAGAGAG
60.39
CGGGGAACGGATCACTGTG
60.45
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGAGTGCGACATAGCA
59.48
GAACGGATCACTGTGGCCAT
60.39
153
PCR template sequence:
AAAGCTGATGCTGCCGACCAAGCTGCACTGGCTGCTCGCCAGGAGTGCGACATAGCAAGAGCTGTGGCCAGAGAGCTGTCACCTGATTTCTACCAACCAGGTACCTACCAGGGCCAGTGGGCTGGAGGCATGCGGCATGGCTACGGTGTCCGCCAGAGTGTGCCCTATGGCATGGCCACAGTGATCCGTTCCCCGCTGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-320-3p(1), mmu-miR-128-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTACCAACCAGGTACCTACCAGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCJPH1_879_ORF_1
1.1094
0.427085645
0.999983213
1728
ORF sequence:
ATGCGGCATGGCTACGGTGTCCGCCAGAGTGTGCCCTATGGCATGGCCACAGTGATCCGTTCCCCGCTGCGCACTTCCCTGGCCTCGCTGCGCAGTGAGCAGAGCAACGGCAGCGTGCTGCATGAAGCTGCAGCCGCAGCTGCAGACAGCCCGGCTGGAACAAGAGGTGGCTTCGTGCTCAACTTCCATGCGGACACGGAACTGGGCAAGAAGAAGGGCGGCCTCTTCCGTCGGGGTTCCCTTCTCGGCAGCATGAAACTCCGCAAGTCCGAATCCAAGTCTTCCATCTCCAGCAAGCGCAGCTCGGTCCGCAGTGATGCAGCCATGAGCAGAATCAGTTCTAGCGATGCCAACTCCACCATCAGCTTTGGTGACGTCGACTGTGATTTTTGCCCCGTGGAAGATCACGTGGATGCCACTACCACGGAAACCTACATGGGCGAGTGGAAGAACGATAAGCGCAATGGCTTCGGCATCAGCGAACGCTCCAATGGCATGAAGTACGAAGGCGAGTGGGCCAATAACAAGAGGCATGGGTACGGCTGCACTGTGTTTCCTGATGGCTCCAAAGAAGAGGGAAAATACAAAAATAATATCCTGGTCCGTGGGATAAGGAAGCAGCTTATACCAATAAGAAATACAAAAACTAGAGAGAAGGTGGATAGAGCAATTGAAGGTGCACAAAGGGCGGCAGCCATGGCCAGAACCAAAGTGGAAATAGCAAACTCAAGGACTGCACATGCCAGAGCAAAAGCTGATGCTGCCGACCAAGCTGCACTGGCTGCTCGCCAGGAGTGCGACATAGCAAGAGCTGTGGCCAGAGAGCTGTCACCTGATTTCTACCAACCAGGTACCTACCAGGGCCAGTGGGCTGGAGGCATGCGGCATGGCTACGGTGTCCGCCAGAGTGTGCCCTATGGCATGGCCACAGTGATCCGTTCCCCGCTGCGCACTTCCCTGGCCTCGCTGCGCAGTGAGCAGAGCAACGGCAGCGTGCTGCATGAAGCTGCAGCCGCAGCTGCAGACAGCCCGGCTGGAACAAGAGGTGGCTTCGTGCTCAACTTCCATGCGGACACGGAACTGGGCAAGAAGAAGGGCGGCCTCTTCCGTCGGGGTTCCCTTCTCGGCAGCATGAAACTCCGCAAGTCCGAATCCAAGTCTTCCATCTCCAGCAAGCGCAGCTCGGTCCGCAGTGATGCAGCCATGAGCAGAATCAGTTCTAGCGATGCCAACTCCACCATCAGCTTTGGTGACGTCGACTGTGATTTTTGCCCCGTGGAAGATCACGTGGATGCCACTACCACGGAAACCTACATGGGCGAGTGGAAGAACGATAAGCGCAATGGCTTCGGCATCAGCGAACGCTCCAATGGCATGAAGTACGAAGGCGAGTGGGCCAATAACAAGAGGCATGGGTACGGCTGCACTGTGTTTCCTGATGGCTCCAAAGAAGAGGGAAAATACAAAAATAATATCCTGGTCCGTGGGATAAGGAAGCAGCTTATACCAATAAGAAATACAAAAACTAGAGAGAAGGTGGATAGAGCAATTGAAGGTGCACAAAGGGCGGCAGCCATGGCCAGAACCAAAGTGGAAATAGCAAACTCAAGGACTGCACATGCCAGAGCAAAAGCTGATGCTGCCGACCAAGCTGCACTGGCTGCTCGCCAGGAGTGCGACATAGCAAGAGCTGTGGCCAGAGAGCTGTCACCTGATTTCTACCAACCA
Peptide sequence:
MRHGYGVRQSVPYGMATVIRSPLRTSLASLRSEQSNGSVLHEAAAAAADSPAGTRGGFVLNFHADTELGKKKGGLFRRGSLLGSMKLRKSESKSSISSKRSSVRSDAAMSRISSSDANSTISFGDVDCDFCPVEDHVDATTTETYMGEWKNDKRNGFGISERSNGMKYEGEWANNKRHGYGCTVFPDGSKEEGKYKNNILVRGIRKQLIPIRNTKTREKVDRAIEGAQRAAAMARTKVEIANSRTAHARAKADAADQAALAARQECDIARAVARELSPDFYQPGTYQGQWAGGMRHGYGVRQSVPYGMATVIRSPLRTSLASLRSEQSNGSVLHEAAAAAADSPAGTRGGFVLNFHADTELGKKKGGLFRRGSLLGSMKLRKSESKSSISSKRSSVRSDAAMSRISSSDANSTISFGDVDCDFCPVEDHVDATTTETYMGEWKNDKRNGFGISERSNGMKYEGEWANNKRHGYGCTVFPDGSKEEGKYKNNILVRGIRKQLIPIRNTKTREKVDRAIEGAQRAAAMARTKVEIANSRTAHARAKADAADQAALAARQECDIARAVARELSPDFYQP
IRESfinder result
IRESfinder score
0.109315208
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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