top of page
mmu_circArhgap29_972
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap29_972
mm39_Chr. Position ID:
chr3|121796190|121801740|+
Gene name:
Arhgap29
Transcript:
ENSMUST00000037958.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
13,14,15,16,17,18,19
Exon/intron offsets:
0,667,1703,3113,4234,5002,5412
Genomic length:
5550
Exon/intron sizes in nt:
1,61,14,01,05,99,14,01,00,000
Flanking exon/introns:
chr3:121787366-121796190|chr3:121801740-121803474
Splice length:
972
Other database IDs:
CIRCpedia: MMU_CIRCpedia_5675, circAtlas: mmu-Arhgap29_0007
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTAACAGTTAACCTCTTTCATATGCAGCAGCTACAGGCTGCATCCCTTGCCAACAGTTTACAGTCCCTCTGTGACAGTGCCAAACTCTATGATCCAGGTCAGGAGTACAGTGAATTCGTGAAGGCTACAAGCTCAAGTGAATTAGAAGAAAAGGTTGATGGGAATGTAAATAAACAAATGACCAACAGTCCGCAGACATCTGGCTATGAACCTGCTGACTCCTTAGAGGATGTTGCCCGCCTTCCTGACAGCTGTCATAAGCTTGAAGAGGACAGGTGCTCCAACAGTGCAGACATGACAGGTCCTTCTTTCGTAAGATCATGGAAGTTCGGAATGTTTAGTGACTCAGAGAGCACTGGAGGAAGCAGTGAGTCTAGATCTCTGGATTCAGAGTCTATAAGTCCAGGAGACTTTCATCGGAAACTTCCACGGACTCCATCCAGTGGAACCATGTCTTCTGCTGATGATCTCGATGAGAGAGAGCCACCGTCCCCTTCAGAAGCTGGACCCAATTCCCTCGGAGCATTTAAGAAAACTTTGATGTCAAAGGCAGCTCTCACTCACAAGTTTCGCAAGTTGAGATCCCCGACAAAGTGCAGGGATTGTGACGGCATCGTAATGTTCCCAGGCGTCGAGTGTGAAGAGTGTCTCCTTGTTTGTCATCGGAAGTGTCTGGAGAATTTAGTCATTATTTGTGGTCATCAAAAACTTCAGGGAAAAATGCACATATTTGGAGCAGAATTCATACAAGTTGCAAAAAAGGAACCAGATGGCATCCCTTTTGTACTGAAAATATGTGCCTCAGAAATTGAAAATAGAGCCTTGTGTCTCCAGGGAATTTATCGTGTTTGTGGAAACAAAATAAAAACTGAAAAACTGTGCCAAGCTTTGGAAAATGGGATGCACTTAGTAGACATTTCAGAATTCAGTTCACATGACATCTGTGATGTCTTGAAATTATACCTGCGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTTGGAAAATGGGATGCACT
60.03
TTTGGCACTGTCACAGAGGG
60.18
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTTTGGAAAATGGGATGCAC
60.03
TTTGGCACTGTCACAGAGGG
60.18
172
PCR template sequence:
AAAACTGTGCCAAGCTTTGGAAAATGGGATGCACTTAGTAGACATTTCAGAATTCAGTTCACATGACATCTGTGATGTCTTGAAATTATACCTGCGACAGGTAACAGTTAACCTCTTTCATATGCAGCAGCTACAGGCTGCATCCCTTGCCAACAGTTTACAGTCCCTCTGTGACAGTGCCAAACTCTATGATCCAGGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-203-3p(1), mmu-miR-324-5p(1), mmu-miR-214-3p(1), mmu-miR-96-5p(1), mmu-miR-182-5p(1), mmu-miR-541-5p(1), mmu-miR-666-5p(1), mmu-miR-342-5p(1), mmu-miR-224-5p(1), mmu-miR-129-5p(1), mmu-miR-670-5p(1), mmu-miR-1904(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATACCTGCGACAGGTAACAGTTAACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP29_972_ORF_1
0.6906
0.079232004
0.999962706
1923
ORF sequence:
ATGCAGCAGCTACAGGCTGCATCCCTTGCCAACAGTTTACAGTCCCTCTGTGACAGTGCCAAACTCTATGATCCAGGTCAGGAGTACAGTGAATTCGTGAAGGCTACAAGCTCAAGTGAATTAGAAGAAAAGGTTGATGGGAATGTAAATAAACAAATGACCAACAGTCCGCAGACATCTGGCTATGAACCTGCTGACTCCTTAGAGGATGTTGCCCGCCTTCCTGACAGCTGTCATAAGCTTGAAGAGGACAGGTGCTCCAACAGTGCAGACATGACAGGTCCTTCTTTCGTAAGATCATGGAAGTTCGGAATGTTTAGTGACTCAGAGAGCACTGGAGGAAGCAGTGAGTCTAGATCTCTGGATTCAGAGTCTATAAGTCCAGGAGACTTTCATCGGAAACTTCCACGGACTCCATCCAGTGGAACCATGTCTTCTGCTGATGATCTCGATGAGAGAGAGCCACCGTCCCCTTCAGAAGCTGGACCCAATTCCCTCGGAGCATTTAAGAAAACTTTGATGTCAAAGGCAGCTCTCACTCACAAGTTTCGCAAGTTGAGATCCCCGACAAAGTGCAGGGATTGTGACGGCATCGTAATGTTCCCAGGCGTCGAGTGTGAAGAGTGTCTCCTTGTTTGTCATCGGAAGTGTCTGGAGAATTTAGTCATTATTTGTGGTCATCAAAAACTTCAGGGAAAAATGCACATATTTGGAGCAGAATTCATACAAGTTGCAAAAAAGGAACCAGATGGCATCCCTTTTGTACTGAAAATATGTGCCTCAGAAATTGAAAATAGAGCCTTGTGTCTCCAGGGAATTTATCGTGTTTGTGGAAACAAAATAAAAACTGAAAAACTGTGCCAAGCTTTGGAAAATGGGATGCACTTAGTAGACATTTCAGAATTCAGTTCACATGACATCTGTGATGTCTTGAAATTATACCTGCGACAGGTAACAGTTAACCTCTTTCATATGCAGCAGCTACAGGCTGCATCCCTTGCCAACAGTTTACAGTCCCTCTGTGACAGTGCCAAACTCTATGATCCAGGTCAGGAGTACAGTGAATTCGTGAAGGCTACAAGCTCAAGTGAATTAGAAGAAAAGGTTGATGGGAATGTAAATAAACAAATGACCAACAGTCCGCAGACATCTGGCTATGAACCTGCTGACTCCTTAGAGGATGTTGCCCGCCTTCCTGACAGCTGTCATAAGCTTGAAGAGGACAGGTGCTCCAACAGTGCAGACATGACAGGTCCTTCTTTCGTAAGATCATGGAAGTTCGGAATGTTTAGTGACTCAGAGAGCACTGGAGGAAGCAGTGAGTCTAGATCTCTGGATTCAGAGTCTATAAGTCCAGGAGACTTTCATCGGAAACTTCCACGGACTCCATCCAGTGGAACCATGTCTTCTGCTGATGATCTCGATGAGAGAGAGCCACCGTCCCCTTCAGAAGCTGGACCCAATTCCCTCGGAGCATTTAAGAAAACTTTGATGTCAAAGGCAGCTCTCACTCACAAGTTTCGCAAGTTGAGATCCCCGACAAAGTGCAGGGATTGTGACGGCATCGTAATGTTCCCAGGCGTCGAGTGTGAAGAGTGTCTCCTTGTTTGTCATCGGAAGTGTCTGGAGAATTTAGTCATTATTTGTGGTCATCAAAAACTTCAGGGAAAAATGCACATATTTGGAGCAGAATTCATACAAGTTGCAAAAAAGGAACCAGATGGCATCCCTTTTGTACTGAAAATATGTGCCTCAGAAATTGAAAATAGAGCCTTGTGTCTCCAGGGAATTTATCGTGTTTGTGGAAACAAAATAAAAACTGAAAAACTGTGCCAAGCTTTGGAAAATGGGATGCACTTAGTAGACATTTCAGAATTCAGTTCACATGACATCTGTGATGTCTTGAAATTATACCTGCGACAG
Peptide sequence:
MQQLQAASLANSLQSLCDSAKLYDPGQEYSEFVKATSSSELEEKVDGNVNKQMTNSPQTSGYEPADSLEDVARLPDSCHKLEEDRCSNSADMTGPSFVRSWKFGMFSDSESTGGSSESRSLDSESISPGDFHRKLPRTPSSGTMSSADDLDEREPPSPSEAGPNSLGAFKKTLMSKAALTHKFRKLRSPTKCRDCDGIVMFPGVECEECLLVCHRKCLENLVIICGHQKLQGKMHIFGAEFIQVAKKEPDGIPFVLKICASEIENRALCLQGIYRVCGNKIKTEKLCQALENGMHLVDISEFSSHDICDVLKLYLRQVTVNLFHMQQLQAASLANSLQSLCDSAKLYDPGQEYSEFVKATSSSELEEKVDGNVNKQMTNSPQTSGYEPADSLEDVARLPDSCHKLEEDRCSNSADMTGPSFVRSWKFGMFSDSESTGGSSESRSLDSESISPGDFHRKLPRTPSSGTMSSADDLDEREPPSPSEAGPNSLGAFKKTLMSKAALTHKFRKLRSPTKCRDCDGIVMFPGVECEECLLVCHRKCLENLVIICGHQKLQGKMHIFGAEFIQVAKKEPDGIPFVLKICASEIENRALCLQGIYRVCGNKIKTEKLCQALENGMHLVDISEFSSHDICDVLKLYLRQ
IRESfinder result
IRESfinder score
0.612906955
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page