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mmu_circEml6_1280
Basic information of circular RNA
PanCircBase ID:
mmu_circEml6_1280
mm39_Chr. Position ID:
chr11|29699258|29710120|-
Gene name:
Eml6
Transcript:
ENSMUST00000058902.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
38,37,36,35,34,33,32,31
Exon/intron offsets:
0,546,1930,3177,3805,5589,9675,10763
Genomic length:
10862
Exon/intron sizes in nt:
163,173,189,115,158,209,174,99
Flanking exon/introns:
chr11:29697533-29699258|chr11:29710120-29711592
Splice length:
1280
Other database IDs:
circAtlas: mmu-Eml6_0054
Human Ortholog IDs:
Mature spliced Sequence:
GCAGCCAGAGCTTCTACCTGGAGCACACGGATGACATCCTCTGCCTCACAGTGAATCAGCACCCAAAGTACAGAAATGTGGTGGCTACCAGCCAGATAGGGACAACACCTTCAATTCATATCTGGGATGCAATGACCAAACACACCCTTTCCATGCTGCGGTGCTTCCACACCAAGGGGGTGAATTACATCAACTTCAGTGCAACCGGGAAGCTCCTGGTGTCTGTGGGCGTGGATCCAGAGCACACCATCACTGTCTGGAGATGGCAAGAAGGTACCAAGGTTGCCAGCCGAGGGGGCCACCTGGAACGAATATTTGTGGTGGAATTTCGCCCTGACTCAGACACACAATTTGTATCTGTTGGAGTCAAACATATGAAGTTCTGGACTCTGGCAGGAAGTGCTCTGCTGTACAAGAAAGGGGTCATCGGGTCTATGGAAGCTGCCAAGATGCAAACGATGCTGTCCGTGGCTTTTGGTGCTAACAACCTTACTTTTACTGGTGCCATCAATGGAGATGTCTATGTCTGGAAGGAGCACTTCCTCATCCGGCTGGTGGCCAAGGCTCACACAGGTCCTGTCTTTACAATGTACACCACCCTCCGAGATGGGCTTATTGTGACTGGCGGAAAAGAACGACCGACTAAGGAAGGAGGAGCTGTAAAGTTGTGGGACCAGGAGATGAAGCGCTGTCGGGCCTTCCAGCTGGAAACAGGGCAGCTGGTGGAATGTGTGCGCTCGGTGTGCCGTGGCAAGGGAAAAATCTTAGTAGGAACCAAAGATGGTGAAATAATTGAAGTTGGGGAAAAAAGCGCTGCTTCAAACATCCTGATTGATGGACACATGGAGGGGGAGATCTGGGGCCTAGCCACACACCCCTCCAAGGACATGTTCATCTCAGCCAGCAATGATGGCACAGCAAGGATCTGGGACCTGGCTGACAAGAAACTGTTAAACAAGGTGAACCTGGGCCATGCGGCCAGGTGTGCAGCCTATAGCCCTGATGGGGAGATGGTGGCCATTGGCATGAAGAATGGAGAGTTTGTCATCTTGCTGGTGAACACCCTGAAAGTTTGGGGGAAAAAACGAGACCGGAAATCTGCCATCCAAGATATCAGAATCAGCCCAGACAACAGATTCTTAGCTGTGGGGTCTTCTGAGCAGACAGTTGACTTCTATGACCTTACTCAGGGCACAAGTCTGAACCGGATCGGCTACTGCAAAGACATCCCAAGCTTTGTCATTCAGATGGACTTTTCTGCAGACAGCAAATACATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGGGCACAAGTCTGAACC
59.89
TGCTGATTCACTGTGAGGCA
59.6
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCACAAGTCTGAACCGGAT
60.32
TGCTGATTCACTGTGAGGCA
59.6
151
PCR template sequence:
CCTTACTCAGGGCACAAGTCTGAACCGGATCGGCTACTGCAAAGACATCCCAAGCTTTGTCATTCAGATGGACTTTTCTGCAGACAGCAAATACATTCAGGCAGCCAGAGCTTCTACCTGGAGCACACGGATGACATCCTCTGCCTCACAGTGAATCAGCACCCAAAGTACAGAAATGTGGTGGCTACCAGCCAGATAGG
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-9-5p(1), mmu-miR-103-3p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-324-5p(1), mmu-miR-143-3p(1), mmu-miR-136-5p(1), mmu-miR-351-5p(1), mmu-miR-183-5p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAATACATTCAGGCAGCCAGAGCTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEML6_1280_ORF_1
1.1087
0.306347335
0.998761501
1203
ORF sequence:
ATGACCAAACACACCCTTTCCATGCTGCGGTGCTTCCACACCAAGGGGGTGAATTACATCAACTTCAGTGCAACCGGGAAGCTCCTGGTGTCTGTGGGCGTGGATCCAGAGCACACCATCACTGTCTGGAGATGGCAAGAAGGTACCAAGGTTGCCAGCCGAGGGGGCCACCTGGAACGAATATTTGTGGTGGAATTTCGCCCTGACTCAGACACACAATTTGTATCTGTTGGAGTCAAACATATGAAGTTCTGGACTCTGGCAGGAAGTGCTCTGCTGTACAAGAAAGGGGTCATCGGGTCTATGGAAGCTGCCAAGATGCAAACGATGCTGTCCGTGGCTTTTGGTGCTAACAACCTTACTTTTACTGGTGCCATCAATGGAGATGTCTATGTCTGGAAGGAGCACTTCCTCATCCGGCTGGTGGCCAAGGCTCACACAGGTCCTGTCTTTACAATGTACACCACCCTCCGAGATGGGCTTATTGTGACTGGCGGAAAAGAACGACCGACTAAGGAAGGAGGAGCTGTAAAGTTGTGGGACCAGGAGATGAAGCGCTGTCGGGCCTTCCAGCTGGAAACAGGGCAGCTGGTGGAATGTGTGCGCTCGGTGTGCCGTGGCAAGGGAAAAATCTTAGTAGGAACCAAAGATGGTGAAATAATTGAAGTTGGGGAAAAAAGCGCTGCTTCAAACATCCTGATTGATGGACACATGGAGGGGGAGATCTGGGGCCTAGCCACACACCCCTCCAAGGACATGTTCATCTCAGCCAGCAATGATGGCACAGCAAGGATCTGGGACCTGGCTGACAAGAAACTGTTAAACAAGGTGAACCTGGGCCATGCGGCCAGGTGTGCAGCCTATAGCCCTGATGGGGAGATGGTGGCCATTGGCATGAAGAATGGAGAGTTTGTCATCTTGCTGGTGAACACCCTGAAAGTTTGGGGGAAAAAACGAGACCGGAAATCTGCCATCCAAGATATCAGAATCAGCCCAGACAACAGATTCTTAGCTGTGGGGTCTTCTGAGCAGACAGTTGACTTCTATGACCTTACTCAGGGCACAAGTCTGAACCGGATCGGCTACTGCAAAGACATCCCAAGCTTTGTCATTCAGATGGACTTTTCTGCAGACAGCAAATACATTCAGGCAGCCAGAGCTTCTACCTGGAGCACACGGATGACATCCTCTGCCTCACAGTGA
Peptide sequence:
MTKHTLSMLRCFHTKGVNYINFSATGKLLVSVGVDPEHTITVWRWQEGTKVASRGGHLERIFVVEFRPDSDTQFVSVGVKHMKFWTLAGSALLYKKGVIGSMEAAKMQTMLSVAFGANNLTFTGAINGDVYVWKEHFLIRLVAKAHTGPVFTMYTTLRDGLIVTGGKERPTKEGGAVKLWDQEMKRCRAFQLETGQLVECVRSVCRGKGKILVGTKDGEIIEVGEKSAASNILIDGHMEGEIWGLATHPSKDMFISASNDGTARIWDLADKKLLNKVNLGHAARCAAYSPDGEMVAIGMKNGEFVILLVNTLKVWGKKRDRKSAIQDIRISPDNRFLAVGSSEQTVDFYDLTQGTSLNRIGYCKDIPSFVIQMDFSADSKYIQAARASTWSTRMTSSASQ
IRESfinder result
IRESfinder score
0.355329715
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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